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Functions701 in github.com/citiususc/BigSeqKit

⨍ Functions 701◇ Types & classes 140
↓ 1 callersMethodKvFile
(v string)
bigseqkit/replace.go:69
↓ 1 callersMethodLineWidth
(v int)
bigseqkit/helper.go:110
↓ 1 callersMethodListTranslTable
(v int)
bigseqkit/translate.go:72
↓ 1 callersMethodListTranslTableWithAmbCodons
(v int)
bigseqkit/translate.go:77
↓ 1 callersMethodLowerCase
(v bool)
bigseqkit/seq.go:102
↓ 1 callersMethodMaxLen
(v int)
bigseqkit/seq.go:132
↓ 1 callersMethodMaxQual
(self, v: float)
bigseqkit-py/bigseqkit/seq.py:66
↓ 1 callersMethodMinLen
(v int)
bigseqkit/seq.go:137
↓ 1 callersMethodMinQual
(v float64)
bigseqkit/seq.go:147
↓ 1 callersMethodMiniCommonWords
(v int64)
bigseqkit/head_genome.go:31
↓ 1 callersMethodN
(v int64)
bigseqkit/head.go:29
↓ 1 callersMethodName
(v bool)
bigseqkit/seq.go:72
↓ 1 callersMethodNonGreedy
(v bool)
bigseqkit/locate.go:92
↓ 1 callersMethodNrWidth
(v int)
bigseqkit/replace.go:54
↓ 1 callersMethodNumber
(v int)
bigseqkit/sample.go:38
↓ 1 callersMethodOnlyFlank
(v bool)
bigseqkit/subseq.go:72
↓ 1 callersMethodOnlyId
(v bool)
bigseqkit/seq.go:87
↓ 1 callersFunctionPairIndex
(p *api.IDataFrame[ipair.IPair[string, string]], i int)
bigseqkit/pair.go:102
↓ 1 callersMethodProportion
(v float32)
bigseqkit/sample.go:43
↓ 1 callersMethodQual
(v bool)
bigseqkit/seq.go:82
↓ 1 callersMethodQualAsciiBase
(v int)
bigseqkit/seq.go:142
↓ 1 callersMethodQuiet
(v bool)
bigseqkit/helper.go:125
↓ 1 callersFunctionRange
(input *api.IDataFrame[string], o *SeqKitRangeOptions)
bigseqkit/range.go:36
↓ 1 callersFunctionReadBedFeatures
ReadBedFeatures returns gtf BedFeatures of a file
bigseqkit-lib/subseq.go:237
↓ 1 callersMethodRegionFile
(v string)
bigseqkit/faidx.go:51
↓ 1 callersMethodRegions
(v []string)
bigseqkit/faidx.go:56
↓ 1 callersMethodRemoveGaps
(v bool)
bigseqkit/seq.go:92
↓ 1 callersMethodReplacement
(v string)
bigseqkit/replace.go:49
↓ 1 callersMethodRna2dna
(v bool)
bigseqkit/seq.go:117
↓ 1 callersMethodSaveUnpaired
(v bool)
bigseqkit/pair.go:29
↓ 1 callersMethodSeparator
(v string)
bigseqkit/concat.go:36
↓ 1 callersMethodSeqPrefixLength
(v uint)
bigseqkit/sort.go:86
↓ 1 callersMethodSeqType
(v string)
bigseqkit/helper.go:105
↓ 1 callersMethodSkipErr
(v bool)
bigseqkit/stats.go:60
↓ 1 callersFunctionStats
(name string, format string, input *api.IDataFrame[string], o *SeqKitStatsOptions)
bigseqkit/stats.go:75
↓ 1 callersMethodTabular
(v bool)
bigseqkit/stats.go:45
↓ 1 callersMethodTimes
(v int64)
bigseqkit/duplicate.go:26
↓ 1 callersMethodTranslTable
(v int)
bigseqkit/translate.go:42
↓ 1 callersMethodTrim
(v bool)
bigseqkit/translate.go:52
↓ 1 callersMethodUpStream
(v int)
bigseqkit/subseq.go:62
↓ 1 callersMethodUpperCase
(v bool)
bigseqkit/seq.go:107
↓ 1 callersMethodUseFmi
(v bool)
bigseqkit/locate.go:72
↓ 1 callersMethodValidateSeq
(v bool)
bigseqkit/seq.go:122
↓ 1 callersMethodValidateSeqLength
(v int)
bigseqkit/helper.go:135
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/subseq.py:38
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/head.py:15
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/sample.py:21
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/sort.py:36
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/locate.py:56
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/range.py:17
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/suffle.py:15
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/seq.py:69
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/faidx.py:29
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/translate.py:41
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/grep.py:56
↓ 1 callersMethod_run
(self, inputA: IDataFrame, inputB: IDataFrame, *args: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/common.py:30
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/rmdup.py:30
↓ 1 callersMethod_run
(self, inputA: IDataFrame, inputB: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/concat.py:23
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/replace.py:42
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/fa2fq.py:19
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/head_genome.py:15
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/rename.py:15
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/duplicate.py:15
↓ 1 callersMethod_run
(self, input: IDataFrame, **kwargs)
bigseqkit-py/bigseqkit/fq2fa.py:12
↓ 1 callersFunctioncommonPair
(inputA *api.IDataFrame[string], inputB *api.IDataFrame[string], opts *PairOptions)
bigseqkit/pair.go:46
↓ 1 callersFunctiondropCRStr
(data string)
bigseqkit-lib/faidx.go:459
↓ 1 callersFunctiongetFileList
(args []string, checkFile bool)
bigseqkit-cli/helper.go:185
↓ 1 callersFunctiongetFileListFromFile
(file string, checkFile bool)
bigseqkit-cli/helper.go:201
↓ 1 callersFunctiongetFlagAlphabetGuessSeqLength
(cmd *cobra.Command, flag string)
bigseqkit-cli/helper.go:332
↓ 1 callersFunctiongetFlagValidateSeqLength
(cmd *cobra.Command, flag string)
bigseqkit-cli/helper.go:340
↓ 1 callersFunctiongetIDRegexp
(cmd *cobra.Command, flag string)
bigseqkit-cli/helper.go:298
↓ 1 callersMethodgrepBySeqMismatches
(pid int64, it iterator.IReadIterator[string], context api.IContext)
bigseqkit-lib/grep.go:255
↓ 1 callersMethodgrepGeneral
(pid int64, it iterator.IReadIterator[string], context api.IContext)
bigseqkit-lib/grep.go:367
↓ 1 callersFunctionparseQualityEncoding
(s string)
bigseqkit-lib/helper.go:119
↓ 1 callersFunctionparseRegion
(region string)
bigseqkit-lib/faidx.go:541
↓ 1 callersFunctionparseSeqKitCommonOptions
(cmd *cobra.Command)
bigseqkit-cli/common.go:18
↓ 1 callersFunctionparseSeqKitConcatOptions
(cmd *cobra.Command)
bigseqkit-cli/concat.go:22
↓ 1 callersFunctionparseSeqKitDuplicateOptions
(cmd *cobra.Command)
bigseqkit-cli/duplicate.go:18
↓ 1 callersFunctionparseSeqKitFa2FqOptions
(cmd *cobra.Command)
bigseqkit-cli/fa2fq.go:18
↓ 1 callersFunctionparseSeqKitFaidxOptions
(cmd *cobra.Command)
bigseqkit-cli/faidx.go:37
↓ 1 callersFunctionparseSeqKitFq2FaOptions
(cmd *cobra.Command)
bigseqkit-cli/fq2fa.go:18
↓ 1 callersFunctionparseSeqKitGrepOptions
(cmd *cobra.Command)
bigseqkit-cli/grep.go:21
↓ 1 callersFunctionparseSeqKitHeadGenomeOptions
(cmd *cobra.Command)
bigseqkit-cli/head_genome.go:18
↓ 1 callersFunctionparseSeqKitHeadOptions
(cmd *cobra.Command)
bigseqkit-cli/head.go:18
↓ 1 callersFunctionparseSeqKitLocateOptions
(cmd *cobra.Command)
bigseqkit-cli/locate.go:14
↓ 1 callersFunctionparseSeqKitPairOptions
(cmd *cobra.Command)
bigseqkit-cli/pair.go:71
↓ 1 callersFunctionparseSeqKitRangeOptions
(cmd *cobra.Command)
bigseqkit-cli/range.go:18
↓ 1 callersFunctionparseSeqKitRenameOptions
(cmd *cobra.Command)
bigseqkit-cli/rename.go:18
↓ 1 callersFunctionparseSeqKitReplaceOptions
(cmd *cobra.Command)
bigseqkit-cli/replace.go:18
↓ 1 callersFunctionparseSeqKitRmDupOptions
(cmd *cobra.Command)
bigseqkit-cli/rmdup.go:14
↓ 1 callersFunctionparseSeqKitSampleOptions
(cmd *cobra.Command)
bigseqkit-cli/sample.go:18
↓ 1 callersFunctionparseSeqKitSeqOptions
(cmd *cobra.Command)
bigseqkit-cli/seq.go:18
↓ 1 callersFunctionparseSeqKitShuffleOptions
(cmd *cobra.Command)
bigseqkit-cli/shuffle.go:18
↓ 1 callersFunctionparseSeqKitSortOptions
(cmd *cobra.Command)
bigseqkit-cli/sort.go:14
↓ 1 callersFunctionparseSeqKitStatsOptions
(cmd *cobra.Command)
bigseqkit-cli/stats.go:30
↓ 1 callersFunctionparseSeqKitSubseqOptions
(cmd *cobra.Command)
bigseqkit-cli/subseq.go:19
↓ 1 callersFunctionparseSeqKitTranslateOptions
(cmd *cobra.Command)
bigseqkit-cli/translate.go:18
↓ 1 callersMethodrange
(self, v: str)
bigseqkit-py/bigseqkit/range.py:14
↓ 1 callersFunctionreadKVs
(file string, ignoreCase bool)
bigseqkit-lib/replace.go:187
↓ 1 callersFunctionrunCmd
(c *cmdPipe)
bigseqkit-cli/pipe.go:18
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