Crate libhmmer_sys

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Expand description

A light rust wrapper around libhmmer and libeasel.

Structs

__pthread_internal_list

P7_DOMAINDEF: reusably managing workflow in defining domains

P7_HMM_WINDOW: data used to track lists of sequence windows

P7_PRIOR: mixture Dirichlet prior for profile HMMs

p7_profile_s

p7_scoredata_s

p7_spcoord_s

P7_SPENSEMBLE: segment pair ensembles for domain locations

Constants

ESL_DMATRIX_eslGENERAL

ESL_DMATRIX_eslUPPER

ESL_HISTOGRAM_COMPLETE

ESL_HISTOGRAM_TRUE_CENSORED

ESL_HISTOGRAM_VIRTUAL_CENSORED

eslMSAFILE_CLUSTALLIKE

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_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_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_hmmfile_formats_e_p7_HMMFILE_20

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

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_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_Textize^⚠

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_GetChar^⚠

esl_opt_GetReal^⚠

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_Deal^⚠

esl_rnd_FChoose^⚠

esl_rnd_Gamma^⚠

esl_rnd_UniformPositive^⚠

esl_rnd_floatstring^⚠

esl_rnd_mem^⚠

esl_rnd_mix3^⚠

esl_rsq_CShuffleKmers^⚠

esl_rsq_CShuffleWindows^⚠

esl_rsq_IID^⚠

esl_rsq_Sample^⚠

esl_rsq_SampleDirty^⚠

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_Textize^⚠

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_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^⚠

Routines in HMMER’s exposed API.

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^⚠

Declarations of the external API.

p7_omx_Destroy^⚠

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_profile_Copy^⚠

p7_profile_GetT^⚠

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 Definitions

ESL_DMATRIX__bindgen_ty_1

ESL_DSQ

ESL_HISTOGRAM__bindgen_ty_1

P7_DOMAINDEF: reusably managing workflow in defining domains

P7_HMM_WINDOW: data used to track lists of sequence windows

P7_PRIOR: mixture Dirichlet prior for profile HMMs

esl_exception_handler_f

The API declarations for easel.c

P7_HMMFILE: an HMM save file or database, open for reading.

p7_offsets_e

p7_pipemodes_e

P7_PIPELINE: H3’s accelerated seq/profile comparison pipeline

p7_scoredatatype_e

P7_SCOREDATA: data used in diagonal recovery and extension

Unions

ESL_SQDATA

p7_scoredata_s__bindgen_ty_1

pthread_mutex_t