List of all items
Structs
- ESL_ALPHABET
- ESL_BITFIELD
- ESL_BUFFER
- ESL_DMATRIX
- ESL_FILEPARSER
- ESL_GETOPTS
- ESL_HISTOGRAM
- ESL_HMM
- ESL_HMX
- ESL_KEYHASH
- ESL_MIXDCHLET
- ESL_MSA
- ESL_MSAFILE
- ESL_MSAFILE_FMTDATA
- ESL_NEWSSI
- ESL_OPTIONS
- ESL_PERMUTATION
- ESL_PKEY
- ESL_RAND64
- ESL_RANDOMNESS
- ESL_SCOREMATRIX
- ESL_SKEY
- ESL_SQ
- ESL_SQ_BLOCK
- ESL_SSI
- ESL_STOPWATCH
- FM_CFG
- P7_OM_BLOCK
- _IO_FILE
- _IO_codecvt
- _IO_marker
- _IO_wide_data
- __pthread_internal_list
- __pthread_mutex_s
- __va_list_tag
- esl_sqascii_s
- esl_sqcache_s
- esl_sqio_s
- esl_sqncbi_s
- esl_sqncbi_vol_s
- fm_ambiglist_s
- fm_data_s
- fm_interval_s
- fm_metadata_s
- fm_seqdata_s
- p7_alidisplay_s
- p7_bg_s
- p7_builder_s
- p7_dom_s
- p7_domaindef_s
- p7_gmx_s
- p7_hit_s
- p7_hmm_s
- p7_hmm_window_list_s
- p7_hmm_window_s
- p7_hmmfile_s
- p7_omx_s
- p7_oprofile_s
- p7_pipeline_s
- p7_prior_s
- p7_profile_s
- p7_scoredata_s
- p7_spcoord_s
- p7_spensemble_s
- p7_tophits_s
- p7_trace_s
- tms
Unions
Functions
- esl_CCompare
- esl_DCompare
- esl_DCompareAbs
- esl_DCompareNew
- esl_FCompare
- esl_FCompareAbs
- esl_FCompareNew
- esl_FileConcat
- esl_FileEnvOpen
- esl_FileExists
- esl_FileNewSuffix
- esl_FileTail
- esl_Free2D
- esl_Free3D
- esl_abc_CDealign
- esl_abc_ConvertDegen2X
- esl_abc_CreateDsq
- esl_abc_DAvgScVec
- esl_abc_DAvgScore
- esl_abc_DCount
- esl_abc_DExpectScVec
- esl_abc_DExpectScore
- esl_abc_DecodeType
- esl_abc_Digitize
- esl_abc_EncodeType
- esl_abc_EncodeTypeMem
- esl_abc_FAvgScVec
- esl_abc_FAvgScore
- esl_abc_FCount
- esl_abc_FExpectScVec
- esl_abc_FExpectScore
- esl_abc_GuessAlphabet
- esl_abc_IAvgScVec
- esl_abc_IAvgScore
- esl_abc_IExpectScVec
- esl_abc_IExpectScore
- esl_abc_Match
- esl_abc_Textize
- esl_abc_TextizeN
- esl_abc_ValidateSeq
- esl_abc_ValidateType
- esl_abc_XDealign
- esl_abc_dsqcat
- esl_abc_dsqcat_noalloc
- esl_abc_dsqcpy
- esl_abc_dsqdup
- esl_abc_dsqlen
- esl_abc_dsqrlen
- esl_abc_revcomp
- esl_alphabet_Create
- esl_alphabet_CreateCustom
- esl_alphabet_Destroy
- esl_alphabet_SetCaseInsensitive
- esl_alphabet_SetDegeneracy
- esl_alphabet_SetEquiv
- esl_alphabet_SetIgnored
- esl_alphabet_Sizeof
- esl_banner
- esl_bitfield_Count
- esl_bitfield_Create
- esl_bitfield_Destroy
- esl_buffer_Close
- esl_buffer_FetchLine
- esl_buffer_FetchLineAsStr
- esl_buffer_FetchToken
- esl_buffer_FetchTokenAsStr
- esl_buffer_Get
- esl_buffer_GetLine
- esl_buffer_GetOffset
- esl_buffer_GetToken
- esl_buffer_Open
- esl_buffer_OpenFile
- esl_buffer_OpenMem
- esl_buffer_OpenPipe
- esl_buffer_OpenStream
- esl_buffer_RaiseAnchor
- esl_buffer_Read
- esl_buffer_Set
- esl_buffer_SetAnchor
- esl_buffer_SetOffset
- esl_buffer_SetStableAnchor
- esl_byteswap
- esl_dataheader
- esl_dmatrix_Clone
- esl_dmatrix_Compare
- esl_dmatrix_CompareAbs
- esl_dmatrix_Copy
- esl_dmatrix_Create
- esl_dmatrix_CreateUpper
- esl_dmatrix_Destroy
- esl_dmatrix_Dump
- esl_dmatrix_PlotHeatMap
- esl_dmatrix_Set
- esl_dmatrix_SetIdentity
- esl_dmatrix_SetZero
- esl_dmx_Add
- esl_dmx_AddScale
- esl_dmx_Exp
- esl_dmx_FrobeniusNorm
- esl_dmx_Invert
- esl_dmx_LUP_decompose
- esl_dmx_LU_separate
- esl_dmx_Max
- esl_dmx_Min
- esl_dmx_MinMax
- esl_dmx_Multiply
- esl_dmx_Permute_PA
- esl_dmx_Scale
- esl_dmx_Sum
- esl_dmx_Transpose
- esl_exception
- esl_exception_ResetDefaultHandler
- esl_exception_SetHandler
- esl_fail
- esl_fatal
- esl_fgets
- esl_file_Extension
- esl_fileparser_Close
- esl_fileparser_Create
- esl_fileparser_CreateMapped
- esl_fileparser_Destroy
- esl_fileparser_GetRemainingLine
- esl_fileparser_GetToken
- esl_fileparser_GetTokenOnLine
- esl_fileparser_NextLine
- esl_fileparser_NextLinePeeked
- esl_fileparser_Open
- esl_fileparser_SetCommentChar
- esl_fprintf
- esl_fread_i16
- esl_fread_i32
- esl_fread_i64
- esl_fread_offset
- esl_fread_u16
- esl_fread_u32
- esl_fread_u64
- esl_free
- esl_fwrite_i16
- esl_fwrite_i32
- esl_fwrite_i64
- esl_fwrite_offset
- esl_fwrite_u16
- esl_fwrite_u32
- esl_fwrite_u64
- esl_getcwd
- esl_getopts_Create
- esl_getopts_CreateDefaultApp
- esl_getopts_Destroy
- esl_getopts_Dump
- esl_getopts_Reuse
- esl_histogram_Add
- esl_histogram_Create
- esl_histogram_CreateFull
- esl_histogram_DeclareCensoring
- esl_histogram_DeclareRounding
- esl_histogram_Destroy
- esl_histogram_GetData
- esl_histogram_GetRank
- esl_histogram_GetTail
- esl_histogram_GetTailByMass
- esl_histogram_Goodness
- esl_histogram_Plot
- esl_histogram_PlotQQ
- esl_histogram_PlotSurvival
- esl_histogram_Score2Bin
- esl_histogram_SetExpect
- esl_histogram_SetExpectedTail
- esl_histogram_SetTail
- esl_histogram_SetTailByMass
- esl_histogram_Write
- esl_hmm_Backward
- esl_hmm_Clone
- esl_hmm_Configure
- esl_hmm_Create
- esl_hmm_Destroy
- esl_hmm_Emit
- esl_hmm_Forward
- esl_hmm_SetDegeneracies
- esl_hmx_Create
- esl_hmx_Destroy
- esl_hmx_GrowTo
- esl_hton16
- esl_hton32
- esl_hton64
- esl_keyhash_Clone
- esl_keyhash_Create
- esl_keyhash_CreateCustom
- esl_keyhash_Destroy
- esl_keyhash_Dump
- esl_keyhash_Get
- esl_keyhash_GetNumber
- esl_keyhash_Lookup
- esl_keyhash_Reuse
- esl_keyhash_Sizeof
- esl_keyhash_Store
- esl_mixdchlet_Compare
- esl_mixdchlet_Create
- esl_mixdchlet_Destroy
- esl_mixdchlet_Dump
- esl_mixdchlet_Fit
- esl_mixdchlet_MPParameters
- esl_mixdchlet_Read
- esl_mixdchlet_Sample
- esl_mixdchlet_Validate
- esl_mixdchlet_Write
- esl_mixdchlet_WriteJSON
- esl_mixdchlet_logp_c
- esl_msa_AddComment
- esl_msa_AddGF
- esl_msa_AddGS
- esl_msa_AppendGC
- esl_msa_AppendGR
- esl_msa_CheckUniqueNames
- esl_msa_Checksum
- esl_msa_Clone
- esl_msa_ColumnSubset
- esl_msa_Compare
- esl_msa_CompareMandatory
- esl_msa_CompareOptional
- esl_msa_ConvertDegen2X
- esl_msa_Copy
- esl_msa_Create
- esl_msa_CreateDigital
- esl_msa_CreateFromString
- esl_msa_Destroy
- esl_msa_Digitize
- esl_msa_Expand
- esl_msa_FlushLeftInserts
- esl_msa_FormatAccession
- esl_msa_FormatAuthor
- esl_msa_FormatDesc
- esl_msa_FormatName
- esl_msa_FormatSeqAccession
- esl_msa_FormatSeqDescription
- esl_msa_FormatSeqName
- esl_msa_GuessAlphabet
- esl_msa_Hash
- esl_msa_MarkFragments
- esl_msa_MarkFragments_old
- esl_msa_MinimGaps
- esl_msa_MinimGapsText
- esl_msa_NoGaps
- esl_msa_NoGapsText
- esl_msa_ReasonableRF
- esl_msa_RemoveBrokenBasepairs
- esl_msa_RemoveBrokenBasepairsFromSS
- esl_msa_ReverseComplement
- esl_msa_Sample
- esl_msa_SequenceSubset
- esl_msa_SetAccession
- esl_msa_SetAuthor
- esl_msa_SetDefaultWeights
- esl_msa_SetDesc
- esl_msa_SetName
- esl_msa_SetSeqAccession
- esl_msa_SetSeqDescription
- esl_msa_SetSeqName
- esl_msa_SymConvert
- esl_msa_Textize
- esl_msa_Validate
- esl_msafile_Close
- esl_msafile_DecodeFormat
- esl_msafile_EncodeFormat
- esl_msafile_GetLine
- esl_msafile_GuessAlphabet
- esl_msafile_GuessFileFormat
- esl_msafile_IsMultiRecord
- esl_msafile_Open
- esl_msafile_OpenBuffer
- esl_msafile_OpenFailure
- esl_msafile_OpenMem
- esl_msafile_PositionByKey
- esl_msafile_PutLine
- esl_msafile_Read
- esl_msafile_ReadFailure
- esl_msafile_SetDigital
- esl_msafile_Write
- esl_msafile_a2m_GuessAlphabet
- esl_msafile_a2m_Read
- esl_msafile_a2m_SetInmap
- esl_msafile_a2m_Write
- esl_msafile_afa_GuessAlphabet
- esl_msafile_afa_Read
- esl_msafile_afa_SetInmap
- esl_msafile_afa_Write
- esl_msafile_clustal_GuessAlphabet
- esl_msafile_clustal_Read
- esl_msafile_clustal_SetInmap
- esl_msafile_clustal_Write
- esl_msafile_fmtdata_Copy
- esl_msafile_fmtdata_Init
- esl_msafile_phylip_CheckFileFormat
- esl_msafile_phylip_GuessAlphabet
- esl_msafile_phylip_Read
- esl_msafile_phylip_SetInmap
- esl_msafile_phylip_Write
- esl_msafile_psiblast_GuessAlphabet
- esl_msafile_psiblast_Read
- esl_msafile_psiblast_SetInmap
- esl_msafile_psiblast_Write
- esl_msafile_selex_GuessAlphabet
- esl_msafile_selex_Read
- esl_msafile_selex_SetInmap
- esl_msafile_selex_Write
- esl_msafile_stockholm_GuessAlphabet
- esl_msafile_stockholm_Read
- esl_msafile_stockholm_SetInmap
- esl_msafile_stockholm_Write
- esl_newssi_AddAlias
- esl_newssi_AddFile
- esl_newssi_AddKey
- esl_newssi_Close
- esl_newssi_Open
- esl_newssi_SetSubseq
- esl_newssi_Write
- esl_nonfatal_handler
- esl_ntoh16
- esl_ntoh32
- esl_ntoh64
- esl_opt_ArgNumber
- esl_opt_DisplayHelp
- esl_opt_GetArg
- esl_opt_GetBoolean
- esl_opt_GetChar
- esl_opt_GetInteger
- esl_opt_GetReal
- esl_opt_GetSetter
- esl_opt_GetString
- esl_opt_IsDefault
- esl_opt_IsOn
- esl_opt_IsUsed
- esl_opt_ProcessCmdline
- esl_opt_ProcessConfigfile
- esl_opt_ProcessEnvironment
- esl_opt_ProcessSpoof
- esl_opt_SpoofCmdline
- esl_opt_VerifyConfig
- esl_permutation_Create
- esl_permutation_Destroy
- esl_permutation_Dump
- esl_permutation_Reuse
- esl_printf
- esl_rand64
- esl_rand64_Create
- esl_rand64_Deal
- esl_rand64_Destroy
- esl_rand64_Dump
- esl_rand64_GetSeed
- esl_rand64_Init
- esl_rand64_Roll
- esl_rand64_double
- esl_rand64_double_closed
- esl_rand64_double_open
- esl_random
- esl_random_uint32
- esl_randomness_Create
- esl_randomness_CreateFast
- esl_randomness_CreateTimeseeded
- esl_randomness_Destroy
- esl_randomness_Dump
- esl_randomness_GetSeed
- esl_randomness_Init
- esl_rnd_DChoose
- esl_rnd_DChooseCDF
- esl_rnd_Deal
- esl_rnd_Dirichlet
- esl_rnd_FChoose
- esl_rnd_FChooseCDF
- esl_rnd_Gamma
- esl_rnd_Gaussian
- esl_rnd_UniformPositive
- esl_rnd_floatstring
- esl_rnd_mem
- esl_rnd_mix3
- esl_rsq_CMarkov0
- esl_rsq_CMarkov1
- esl_rsq_CReverse
- esl_rsq_CShuffle
- esl_rsq_CShuffleDP
- esl_rsq_CShuffleKmers
- esl_rsq_CShuffleWindows
- esl_rsq_IID
- esl_rsq_Sample
- esl_rsq_SampleDirty
- esl_rsq_XMarkov0
- esl_rsq_XMarkov1
- esl_rsq_XReverse
- esl_rsq_XShuffle
- esl_rsq_XShuffleDP
- esl_rsq_XShuffleKmers
- esl_rsq_XShuffleWindows
- esl_rsq_fIID
- esl_rsq_xIID
- esl_rsq_xfIID
- esl_scorematrix_Clone
- esl_scorematrix_Compare
- esl_scorematrix_CompareCanon
- esl_scorematrix_Copy
- esl_scorematrix_Create
- esl_scorematrix_Destroy
- esl_scorematrix_ExpectedScore
- esl_scorematrix_IsSymmetric
- esl_scorematrix_JointToConditionalOnQuery
- esl_scorematrix_Max
- esl_scorematrix_Min
- esl_scorematrix_Probify
- esl_scorematrix_ProbifyGivenBG
- esl_scorematrix_Read
- esl_scorematrix_RelEntropy
- esl_scorematrix_Set
- esl_scorematrix_SetFromProbs
- esl_scorematrix_SetIdentity
- esl_scorematrix_SetWAG
- esl_scorematrix_Write
- esl_sprintf
- esl_sq_AppendDesc
- esl_sq_BlockGrowTo
- esl_sq_BlockReallocSequences
- esl_sq_CAddResidue
- esl_sq_Checksum
- esl_sq_Compare
- esl_sq_ConvertDegen2X
- esl_sq_Copy
- esl_sq_CountResidues
- esl_sq_Create
- esl_sq_CreateBlock
- esl_sq_CreateDigital
- esl_sq_CreateDigitalBlock
- esl_sq_CreateDigitalFrom
- esl_sq_CreateFrom
- esl_sq_Destroy
- esl_sq_DestroyBlock
- esl_sq_Digitize
- esl_sq_FetchFromMSA
- esl_sq_FormatAccession
- esl_sq_FormatDesc
- esl_sq_FormatName
- esl_sq_FormatSource
- esl_sq_GetFromMSA
- esl_sq_Grow
- esl_sq_GrowTo
- esl_sq_GuessAlphabet
- esl_sq_IsDigital
- esl_sq_IsText
- esl_sq_Reuse
- esl_sq_ReverseComplement
- esl_sq_Sample
- esl_sq_SetAccession
- esl_sq_SetCoordComplete
- esl_sq_SetDesc
- esl_sq_SetName
- esl_sq_SetSource
- esl_sq_Textize
- esl_sq_XAddResidue
- esl_sqascii_Open
- esl_sqascii_Parse
- esl_sqascii_WriteFasta
- esl_sqfile_Cache
- esl_sqfile_Close
- esl_sqfile_Free
- esl_sqfile_GetErrorBuf
- esl_sqfile_GuessAlphabet
- esl_sqfile_IsRewindable
- esl_sqfile_Open
- esl_sqfile_OpenDigital
- esl_sqfile_OpenSSI
- esl_sqfile_Position
- esl_sqfile_PositionByKey
- esl_sqfile_PositionByNumber
- esl_sqfile_SetDigital
- esl_sqio_AcceptAs
- esl_sqio_DecodeFormat
- esl_sqio_Echo
- esl_sqio_EncodeFormat
- esl_sqio_Fetch
- esl_sqio_FetchInfo
- esl_sqio_FetchSubseq
- esl_sqio_Ignore
- esl_sqio_IsAlignment
- esl_sqio_Parse
- esl_sqio_Read
- esl_sqio_ReadBlock
- esl_sqio_ReadInfo
- esl_sqio_ReadSequence
- esl_sqio_ReadWindow
- esl_sqio_Write
- esl_sqncbi_Open
- esl_ssi_Close
- esl_ssi_FileInfo
- esl_ssi_FindName
- esl_ssi_FindNumber
- esl_ssi_FindSubseq
- esl_ssi_Open
- esl_stopwatch_Create
- esl_stopwatch_Destroy
- esl_stopwatch_Display
- esl_stopwatch_GetElapsed
- esl_stopwatch_Include
- esl_stopwatch_Start
- esl_stopwatch_Stop
- esl_str_GetMaxWidth
- esl_str_IsBlank
- esl_str_IsInteger
- esl_str_IsReal
- esl_strcat
- esl_strchop
- esl_strcmp
- esl_strdealign
- esl_strdup
- esl_strmapcat
- esl_strmapcat_noalloc
- esl_strtok
- esl_strtok_adv
- esl_tmpfile
- esl_tmpfile_named
- esl_usage
- esl_vsprintf
- p7_AminoFrequencies
- p7_Backward
- p7_BackwardParser
- p7_Builder
- p7_Builder_MaxLength
- p7_Calibrate
- p7_CoreEmit
- p7_CreateDefaultApp
- p7_Decoding
- p7_Die
- p7_DomainDecoding
- p7_EntropyWeight
- p7_EntropyWeight_exp
- p7_FLogsum
- p7_FLogsumError
- p7_FLogsumInit
- p7_Fail
- p7_Fastmodelmaker
- p7_Forward
- p7_ForwardParser
- p7_GBackward
- p7_GDecoding
- p7_GDomainDecoding
- p7_GForward
- p7_GHybrid
- p7_GMSV
- p7_GMSV_longtarget
- p7_GNull2_ByExpectation
- p7_GNull2_ByTrace
- p7_GOATrace
- p7_GOptimalAccuracy
- p7_GStochasticTrace
- p7_GTrace
- p7_GViterbi
- p7_GViterbi_longtarget
- p7_Handmodelmaker
- p7_ILogsum
- p7_ILogsumInit
- p7_Lambda
- p7_MSVFilter
- p7_MSVMu
- p7_MeanForwardScore
- p7_MeanMatchEntropy
- p7_MeanMatchInfo
- p7_MeanMatchRelativeEntropy
- p7_MeanPositionRelativeEntropy
- p7_Null2_ByExpectation
- p7_Null2_ByTrace
- p7_OATrace
- p7_OptimalAccuracy
- p7_ParameterEstimation
- p7_Pipeline
- p7_Pipeline_LongTarget
- p7_ProfileConfig
- p7_ProfileEmit
- p7_ReconfigLength
- p7_ReconfigMultihit
- p7_ReconfigUnihit
- p7_SSVFM_longlarget
- p7_SSVFilter
- p7_SSVFilter_longtarget
- p7_Seqmodel
- p7_SingleBuilder
- p7_StochasticTrace
- p7_Tau
- p7_ViterbiFilter
- p7_ViterbiFilter_longtarget
- p7_ViterbiMu
- p7_ViterbiScore
- p7_alidisplay_Backconvert
- p7_alidisplay_Clone
- p7_alidisplay_Compare
- p7_alidisplay_Create
- p7_alidisplay_Create_empty
- p7_alidisplay_DecodePostProb
- p7_alidisplay_Deserialize
- p7_alidisplay_Deserialize_old
- p7_alidisplay_Destroy
- p7_alidisplay_Dump
- p7_alidisplay_EncodeAliPostProb
- p7_alidisplay_EncodePostProb
- p7_alidisplay_Print
- p7_alidisplay_Sample
- p7_alidisplay_Serialize
- p7_alidisplay_Serialize_old
- p7_alidisplay_Sizeof
- p7_banner
- p7_bg_Clone
- p7_bg_Create
- p7_bg_CreateUniform
- p7_bg_Destroy
- p7_bg_Dump
- p7_bg_FilterScore
- p7_bg_NullOne
- p7_bg_Read
- p7_bg_SetFilter
- p7_bg_SetLength
- p7_bg_Write
- p7_builder_Create
- p7_builder_Destroy
- p7_builder_LoadScoreSystem
- p7_builder_SetScoreSystem
- p7_closelog
- p7_domain_Compare
- p7_domain_Create_empty
- p7_domain_Deserialize
- p7_domain_Destroy
- p7_domain_Serialize
- p7_domain_TestSample
- p7_domaindef_ByPosteriorHeuristics
- p7_domaindef_ByViterbi
- p7_domaindef_Create
- p7_domaindef_Destroy
- p7_domaindef_DumpPosteriors
- p7_domaindef_Fetch
- p7_domaindef_GrowTo
- p7_domaindef_Reuse
- p7_emit_FancyConsensus
- p7_emit_SimpleConsensus
- p7_gmx_Compare
- p7_gmx_Create
- p7_gmx_Destroy
- p7_gmx_Dump
- p7_gmx_DumpWindow
- p7_gmx_GrowTo
- p7_gmx_Reuse
- p7_gmx_Sizeof
- p7_h2io_WriteASCII
- p7_hit_Compare
- p7_hit_Create_empty
- p7_hit_Deserialize
- p7_hit_Destroy
- p7_hit_Serialize
- p7_hit_TestSample
- p7_hmm_AppendComlog
- p7_hmm_CalculateOccupancy
- p7_hmm_Clone
- p7_hmm_Compare
- p7_hmm_CompositionKLD
- p7_hmm_CopyParameters
- p7_hmm_Create
- p7_hmm_CreateBody
- p7_hmm_CreateShell
- p7_hmm_DecodeStatetype
- p7_hmm_Destroy
- p7_hmm_Dump
- p7_hmm_EncodeStatetype
- p7_hmm_Renormalize
- p7_hmm_Sample
- p7_hmm_SampleEnumerable
- p7_hmm_SampleUngapped
- p7_hmm_SampleUniform
- p7_hmm_Scale
- p7_hmm_ScaleExponential
- p7_hmm_ScoreDataClone
- p7_hmm_ScoreDataComputeRest
- p7_hmm_ScoreDataCreate
- p7_hmm_ScoreDataDestroy
- p7_hmm_SetAccession
- p7_hmm_SetComposition
- p7_hmm_SetConsensus
- p7_hmm_SetCtime
- p7_hmm_SetDescription
- p7_hmm_SetName
- p7_hmm_Validate
- p7_hmm_Zero
- p7_hmm_initWindows
- p7_hmm_newWindow
- p7_hmmfile_Close
- p7_hmmfile_CreateLock
- p7_hmmfile_Open
- p7_hmmfile_OpenBuffer
- p7_hmmfile_OpenE
- p7_hmmfile_OpenENoDB
- p7_hmmfile_OpenNoDB
- p7_hmmfile_Position
- p7_hmmfile_PositionByKey
- p7_hmmfile_Read
- p7_hmmfile_WriteASCII
- p7_hmmfile_WriteBinary
- p7_hmmfile_WriteToString
- p7_hmmwindow_init
- p7_hmmwindow_new
- p7_island_Viterbi
- p7_nontranslated_alidisplay_Print
- p7_null3_score
- p7_null3_windowed_score
- p7_omx_Create
- p7_omx_Destroy
- p7_omx_DumpFBRow
- p7_omx_DumpMFRow
- p7_omx_DumpVFRow
- p7_omx_FDeconvert
- p7_omx_GrowTo
- p7_omx_Reuse
- p7_omx_SetDumpMode
- p7_openlog
- p7_oprofile_Clone
- p7_oprofile_Compare
- p7_oprofile_Convert
- p7_oprofile_Copy
- p7_oprofile_Create
- p7_oprofile_CreateBlock
- p7_oprofile_Destroy
- p7_oprofile_DestroyBlock
- p7_oprofile_Dump
- p7_oprofile_GetFwdEmissionArray
- p7_oprofile_GetFwdEmissionScoreArray
- p7_oprofile_GetFwdTransitionArray
- p7_oprofile_GetSSVEmissionScoreArray
- p7_oprofile_IsLocal
- p7_oprofile_Position
- p7_oprofile_ReadBlockMSV
- p7_oprofile_ReadInfoMSV
- p7_oprofile_ReadMSV
- p7_oprofile_ReadRest
- p7_oprofile_ReconfigLength
- p7_oprofile_ReconfigMSVLength
- p7_oprofile_ReconfigMultihit
- p7_oprofile_ReconfigRestLength
- p7_oprofile_ReconfigUnihit
- p7_oprofile_Sample
- p7_oprofile_Sizeof
- p7_oprofile_UpdateFwdEmissionScores
- p7_oprofile_UpdateMSVEmissionScores
- p7_oprofile_UpdateVitEmissionScores
- p7_oprofile_Write
- p7_pipeline_Create
- p7_pipeline_Destroy
- p7_pipeline_Merge
- p7_pipeline_Reuse
- p7_pli_DomainIncludable
- p7_pli_DomainReportable
- p7_pli_ExtendAndMergeWindows
- p7_pli_NewModel
- p7_pli_NewModelThresholds
- p7_pli_NewSeq
- p7_pli_Statistics
- p7_pli_TargetIncludable
- p7_pli_TargetReportable
- p7_prior_CreateAmino
- p7_prior_CreateLaplace
- p7_prior_CreateNucleic
- p7_prior_Destroy
- p7_profile_Clone
- p7_profile_Compare
- p7_profile_Copy
- p7_profile_Create
- p7_profile_Destroy
- p7_profile_GetT
- p7_profile_IsLocal
- p7_profile_IsMultihit
- p7_profile_Reuse
- p7_profile_SameAsMF
- p7_profile_SameAsVF
- p7_profile_SetNullEmissions
- p7_profile_Sizeof
- p7_profile_Validate
- p7_spensemble_Add
- p7_spensemble_Cluster
- p7_spensemble_Create
- p7_spensemble_Destroy
- p7_spensemble_GetClusterCoords
- p7_spensemble_Reuse
- p7_syslog
- p7_tophits_Add
- p7_tophits_AliScores
- p7_tophits_Alignment
- p7_tophits_CompareRanking
- p7_tophits_ComputeNhmmerEvalues
- p7_tophits_Create
- p7_tophits_CreateNextHit
- p7_tophits_Destroy
- p7_tophits_Domains
- p7_tophits_GetMaxAccessionLength
- p7_tophits_GetMaxNameLength
- p7_tophits_GetMaxPositionLength
- p7_tophits_GetMaxShownLength
- p7_tophits_Grow
- p7_tophits_Merge
- p7_tophits_RemoveDuplicates
- p7_tophits_SortByModelnameAndAlipos
- p7_tophits_SortBySeqidxAndAlipos
- p7_tophits_SortBySortkey
- p7_tophits_TabularDomains
- p7_tophits_TabularTail
- p7_tophits_TabularTargets
- p7_tophits_TabularXfam
- p7_tophits_Targets
- p7_tophits_Threshold
- p7_trace_Append
- p7_trace_AppendWithPP
- p7_trace_Compare
- p7_trace_Count
- p7_trace_Create
- p7_trace_CreateWithPP
- p7_trace_Destroy
- p7_trace_DestroyArray
- p7_trace_Doctor
- p7_trace_Dump
- p7_trace_FauxFromMSA
- p7_trace_GetDomainCoords
- p7_trace_GetDomainCount
- p7_trace_GetExpectedAccuracy
- p7_trace_GetStateUseCounts
- p7_trace_Grow
- p7_trace_GrowIndex
- p7_trace_GrowIndexTo
- p7_trace_GrowTo
- p7_trace_Index
- p7_trace_Reuse
- p7_trace_Reverse
- p7_trace_Score
- p7_trace_SetPP
- p7_trace_Validate
- p7_tracealign_MSA
- p7_tracealign_Seqs
- p7_tracealign_computeTraces
- p7_tracealign_getMSAandStats
- p7_translated_alidisplay_Print
Type Aliases
- ESL_DMATRIX__bindgen_ty_1
- ESL_DSQ
- ESL_HISTOGRAM__bindgen_ty_1
- ESL_SQASCII_DATA
- ESL_SQCACHE
- ESL_SQFILE
- ESL_SQNCBI_DATA
- ESL_SQNCBI_VOLUME
- FILE
- FM_AMBIGLIST
- FM_DATA
- FM_INTERVAL
- FM_METADATA
- FM_SEQDATA
- P7_ALIDISPLAY
- P7_BG
- P7_BUILDER
- P7_DOMAIN
- P7_DOMAINDEF
- P7_GMX
- P7_HIT
- P7_HMM
- P7_HMMFILE
- P7_HMM_WINDOW
- P7_HMM_WINDOWLIST
- P7_OMX
- P7_OPROFILE
- P7_PIPELINE
- P7_PRIOR
- P7_PROFILE
- P7_SCOREDATA
- P7_SPENSEMBLE
- P7_TOPHITS
- P7_TRACE
- _IO_lock_t
- __builtin_va_list
- __clock_t
- __m128
- __m128i
- __off64_t
- __off_t
- __pthread_list_t
- clock_t
- esl_buffer_mode_e
- esl_exception_handler_f
- esl_pos_t
- off_t
- p7_archchoice_e
- p7_complementarity_e
- p7_cutoffs_e
- p7_effnchoice_e
- p7_evparams_e
- p7_hmmfile_formats_e
- p7_offsets_e
- p7_pipemodes_e
- p7_scoredatatype_e
- p7_strands_e
- p7_wgtchoice_e
- p7_zsetby_e
- va_list
Constants
- ESL_DMATRIX_eslGENERAL
- ESL_DMATRIX_eslUPPER
- ESL_HISTOGRAM_COMPLETE
- ESL_HISTOGRAM_TRUE_CENSORED
- ESL_HISTOGRAM_VIRTUAL_CENSORED
- eslAMINO
- eslARG_CHAR
- eslARG_INFILE
- eslARG_INT
- eslARG_NONE
- eslARG_OUTFILE
- eslARG_REAL
- eslARG_SETBY_CFGFILE
- eslARG_SETBY_CMDLINE
- eslARG_SETBY_DEFAULT
- eslARG_SETBY_ENV
- eslARG_STRING
- eslBUFFER_PAGESIZE
- eslBUFFER_SLURPSIZE
- eslCOINS
- eslCONST_E
- eslCONST_EULER
- eslCONST_GOLD
- eslCONST_LOG2
- eslCONST_LOG2R
- eslCONST_PI
- eslDEBUGLEVEL
- eslDICE
- eslDIRSLASH
- eslDNA
- eslDSQ_EOD
- eslDSQ_EOL
- eslDSQ_IGNORED
- eslDSQ_ILLEGAL
- eslDSQ_SENTINEL
- eslEAMBIGUOUS
- eslECORRUPT
- eslEDIVZERO
- eslEDUP
- eslEFORMAT
- eslEINACCURATE
- eslEINCOMPAT
- eslEINCONCEIVABLE
- eslEINVAL
- eslEMEM
- eslENABLE_SSE
- eslENOALPHABET
- eslENODATA
- eslENOFORMAT
- eslENOHALT
- eslENORESULT
- eslENOSPACE
- eslENOTFOUND
- eslEOD
- eslEOF
- eslEOL
- eslEOVERWRITE
- eslERANGE
- eslERRBUFSIZE
- eslESYNTAX
- eslESYS
- eslETYPE
- eslEUNIMPLEMENTED
- eslEWRITE
- eslFAIL
- eslMSAFILE_A2M
- eslMSAFILE_AFA
- eslMSAFILE_CLUSTAL
- eslMSAFILE_CLUSTALLIKE
- eslMSAFILE_PFAM
- eslMSAFILE_PHYLIP
- eslMSAFILE_PHYLIPS
- eslMSAFILE_PSIBLAST
- eslMSAFILE_SELEX
- eslMSAFILE_STOCKHOLM
- eslMSAFILE_UNKNOWN
- eslMSA_DIGITAL
- eslMSA_GA1
- eslMSA_GA2
- eslMSA_HASWGTS
- eslMSA_NC1
- eslMSA_NC2
- eslMSA_NCUTS
- eslMSA_TC1
- eslMSA_TC2
- eslNONSTANDARD
- eslOK
- eslREADBUFSIZE
- eslRNA
- eslRND_FAST
- eslRND_MERSENNE
- eslRSQ_SAMPLE_ALNUM
- eslRSQ_SAMPLE_ALPHA
- eslRSQ_SAMPLE_BLANK
- eslRSQ_SAMPLE_CNTRL
- eslRSQ_SAMPLE_DIGIT
- eslRSQ_SAMPLE_GRAPH
- eslRSQ_SAMPLE_LOWER
- eslRSQ_SAMPLE_PRINT
- eslRSQ_SAMPLE_PUNCT
- eslRSQ_SAMPLE_SPACE
- eslRSQ_SAMPLE_UPPER
- eslRSQ_SAMPLE_XDIGIT
- eslSMALLX1
- eslSQFILE_DAEMON
- eslSQFILE_DDBJ
- eslSQFILE_EMBL
- eslSQFILE_FASTA
- eslSQFILE_FMINDEX
- eslSQFILE_GENBANK
- eslSQFILE_HMMPGMD
- eslSQFILE_NCBI
- eslSQFILE_UNIPROT
- eslSQFILE_UNKNOWN
- eslSQ_ACCCHUNK
- eslSQ_DESCCHUNK
- eslSQ_NAMECHUNK
- eslSQ_SEQCHUNK
- eslSSI_FASTSUBSEQ
- eslSSI_FCHUNK
- eslSSI_KCHUNK
- eslSSI_MAXFILES
- eslSSI_MAXKEYS
- eslSSI_MAXRAM
- eslUNKNOWN
- esl_buffer_mode_e_eslBUFFER_ALLFILE
- esl_buffer_mode_e_eslBUFFER_CMDPIPE
- esl_buffer_mode_e_eslBUFFER_FILE
- esl_buffer_mode_e_eslBUFFER_MMAP
- esl_buffer_mode_e_eslBUFFER_STREAM
- esl_buffer_mode_e_eslBUFFER_STRING
- esl_buffer_mode_e_eslBUFFER_UNSET
- p7_archchoice_e_p7_ARCH_FAST
- p7_archchoice_e_p7_ARCH_HAND
- p7_complementarity_e_p7_COMPLEMENT
- p7_complementarity_e_p7_NOCOMPLEMENT
- p7_cutoffs_e_p7_GA1
- p7_cutoffs_e_p7_GA2
- p7_cutoffs_e_p7_NC1
- p7_cutoffs_e_p7_NC2
- p7_cutoffs_e_p7_TC1
- p7_cutoffs_e_p7_TC2
- p7_effnchoice_e_p7_EFFN_CLUST
- p7_effnchoice_e_p7_EFFN_ENTROPY
- p7_effnchoice_e_p7_EFFN_ENTROPY_EXP
- p7_effnchoice_e_p7_EFFN_NONE
- p7_effnchoice_e_p7_EFFN_SET
- p7_evparams_e_p7_FLAMBDA
- p7_evparams_e_p7_FTAU
- p7_evparams_e_p7_MLAMBDA
- p7_evparams_e_p7_MMU
- p7_evparams_e_p7_VLAMBDA
- p7_evparams_e_p7_VMU
- p7_hmmfile_formats_e_p7_HMMFILE_20
- p7_hmmfile_formats_e_p7_HMMFILE_3a
- p7_hmmfile_formats_e_p7_HMMFILE_3b
- p7_hmmfile_formats_e_p7_HMMFILE_3c
- p7_hmmfile_formats_e_p7_HMMFILE_3d
- p7_hmmfile_formats_e_p7_HMMFILE_3e
- p7_hmmfile_formats_e_p7_HMMFILE_3f
- p7_offsets_e_p7_FOFFSET
- p7_offsets_e_p7_MOFFSET
- p7_offsets_e_p7_POFFSET
- p7_pipemodes_e_p7_SCAN_MODELS
- p7_pipemodes_e_p7_SEARCH_SEQS
- p7_scoredatatype_e_p7_sd_fm
- p7_scoredatatype_e_p7_sd_std
- p7_strands_e_p7_STRAND_BOTH
- p7_strands_e_p7_STRAND_BOTTOMONLY
- p7_strands_e_p7_STRAND_TOPONLY
- p7_wgtchoice_e_p7_WGT_BLOSUM
- p7_wgtchoice_e_p7_WGT_GIVEN
- p7_wgtchoice_e_p7_WGT_GSC
- p7_wgtchoice_e_p7_WGT_NONE
- p7_wgtchoice_e_p7_WGT_PB
- p7_zsetby_e_p7_ZSETBY_FILEINFO
- p7_zsetby_e_p7_ZSETBY_NTARGETS
- p7_zsetby_e_p7_ZSETBY_OPTION