Crate libhmmer_sys

source · [−]

Expand description

A light rust wrapper around libhmmer and libeasel.

Structs

__pthread_internal_slist

__pthread_mutex_s

__pthread_mutex_s__bindgen_ty_1__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

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

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_abc_ConvertDegen2X ^⚠

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_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_Permute_PA ^⚠

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_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_SetDegeneracies ^⚠

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_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_opt_DisplayHelp ^⚠

esl_opt_GetArg ^⚠

esl_opt_GetBoolean ^⚠

esl_opt_GetChar ^⚠

esl_opt_GetInteger ^⚠

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_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_rsq_CShuffleDP ^⚠

esl_rsq_CShuffleKmers ^⚠

esl_rsq_CShuffleWindows ^⚠

esl_rsq_IID ^⚠

esl_rsq_Sample ^⚠

esl_rsq_SampleDirty ^⚠

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_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_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_strmapcat_noalloc ^⚠

p7_AminoFrequencies ^⚠

p7_Backward ^⚠

p7_BackwardParser ^⚠

p7_Builder ^⚠

p7_Builder_MaxLength ^⚠

p7_Calibrate ^⚠

p7_CoreEmit ^⚠

p7_CreateDefaultApp ^⚠

p7_EntropyWeight_exp ^⚠

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_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_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_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_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_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

__pthread_mutex_s__bindgen_ty_1

p7_scoredata_s__bindgen_ty_1

pthread_mutex_t