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tacorna.github.io

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Tacorna.github.io
Page TitleTaco

Length: 4 characters
Meta Descriptionno meta description data for tacorna.github.io
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Meta Keywordsno meta keywords data for tacorna.github.io
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Page ContentWeb Page Content Length: 37358 characters
H1 HeadingManual

Count: 1 heading tag
H2 HeadingsTACO: Multi-sample transcriptome assembly from RNA-Seq
Methods
Results
Download Code
Download References
Test Installation
Build Instructions TACO is written in Python with C extensions for performance critical code
Arguments
Output TACO writes output to the directory specified by the -o command line option. Within this directory, the import output files are: Transcriptome assembly: assembly.gtf This GTF file contains TACO's assembled isoforms. The first 7 columns are standard GTF, and the last column contains attributes, some of which are also standardized (“gene_id”, and “transcript_id”). There one GTF record per row, and each record represents either a transcript or an exon within a transcript. The columns are defined as follows: Column number Column name Example Description 1 seqname chrX Chromosome or contig name 2 source taco The name of the program that generated this file (always taco) 3 feature exon The type of record (always either “transcript” or “exon”. 4 start 77696957 The leftmost coordinate of this record (where 1 is the leftmost possible coordinate) 5 end 77712009 The rightmost coordinate of this record, inclusive. 6 score 77712009 The most abundant isoform for each
FAQ
Contact
Transcriptome Assemblies
MIT License

Count: 13 heading tag
H3 HeadingsGeneral Options
Advanced Options
Batches
Individual assemblies
References

Count: 5 heading tag
H4 HeadingsReleases
Source Code
Build Code
Test Installation
Required Dependencies:
Optional Dependencies (to generate single file binaries):
Building TACO on your system:
Transcriptome assembly: assembly.gtf
Transcriptome assembly: assembly.bed
Transfrag coverage profiles: expr.pos.bedgraph , expr.neg.bedgraph , expr.none.bedgraph
Transfrag splice junction profiles: splice_junctions.bed
Run instructions

Count: 12 heading tag
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Page Sizepage size: 36 kb
Response Timeresponse time: 0.106 sec
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