| add annotation.maker.longest() and formats.gff.parents() |
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almost 13 years ago
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| minor formatting changes when reporting overlapping models |
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almost 13 years ago
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| write to scores fiel in annnotation.maker.batcheval() |
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almost 13 years ago
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| add batch evaluator in annotation.maker.batcheval() |
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almost 13 years ago
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| accept integer qv in formats.fasta.fastq() |
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almost 13 years ago
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| add --qv option to formats.fasta.fastq() |
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almost 13 years ago
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| add formats.bed.pile() and formats.gff.children() |
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almost 13 years ago
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| simplify update_attributes() in formats.gff |
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almost 13 years ago
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| add --rc to formats.fastq.splitread() |
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almost 13 years ago
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| add option --genomesize to assembly.simulate.wgsim() |
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almost 13 years ago
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| add option --noerrors for assembly.simulate.wgsim() |
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almost 13 years ago
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| fix bug in apps.grid that prevents some jobs to be run |
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almost 13 years ago
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| add option --nogaps in formats.agp.reindex() and formats.agp.tidy() |
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almost 13 years ago
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| fix bug in utils.range.range_interleave() |
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almost 13 years ago
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| specifically handle orientation codes in agp to chain conversion |
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almost 13 years ago
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| add formats.agp.cut() and formats.agp.swap(); add option --sizes to formats.fasta.sort() |
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almost 13 years ago
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| add option --names to formats.gff.extract() to extract gff lines with certain Name= |
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almost 13 years ago
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| Merge branch 'master' of github.com:tanghaibao/jcvi |
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almost 13 years ago
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| finish annotation.maker.split() |
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almost 13 years ago
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| Minor fix to formats.ace.extract(). Now write to an output FASTA file instead of stdout. Removed redundant 'print' lines from formats.ace.report() |
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almost 13 years ago
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| Merge branch 'master' of github.com:tanghaibao/jcvi |
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almost 13 years ago
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| add option --query to formats.bed.evaluate() |
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almost 13 years ago
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| add jcvi.format.ace to parse ace files. provide two options to extract contigs from ace file and prepare report of read location, consensus location or quality clip segments per contig |
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almost 13 years ago
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| add formats.bed.index() to index bed files using tabix |
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almost 13 years ago
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| add formats.fileindex.bed() and annotation.maker.split() |
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almost 13 years ago
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| calculate sensitivity, specificity, accuracy given two bed files in formats.bed.evaluate() |
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almost 13 years ago
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| Added jcvi.formats.gff.frombed() to convert a simple bed file into GFF3 formatted output |
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almost 13 years ago
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| Merge branch 'master' of github.com:tanghaibao/jcvi |
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almost 13 years ago
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| add Ks histogram plotter option --pdf to apps.ks.report() |
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almost 13 years ago
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| add algorithms.synteny.groups() and apps.ks.fromgroups() |
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almost 13 years ago
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