TASR specifications

Information


Unique identifier OMICS_06136
Name TASR
Alternative name Targeted Assembler of [short] Sequence Reads
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux, Mac OS
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for Targeted Assembler of [short] Sequence Reads

TASR citations

 (2)
library_books

The North American bullfrog draft genome provides insight into hormonal regulation of long noncoding RNA

2017
Nat Commun
PMCID: 5681567
PMID: 29127278
DOI: 10.1038/s41467-017-01316-7

[…] ive to AB761267. We resolved these misassemblies using the correct Japanese reference sequence for these regions as candidates for a targeted de novo assembly of Illumina paired-end 250 bp reads with TASR; v1.7 with -w 1 -i 1 -k 15 -m 20 -o 2 -r 0.7. TASR uses whole reads for assemblies, and mitigates misassemblies otherwise caused by breaking reads into k-mers. The resulting TASR contigs that cap […]

library_books

Activation of an endogenous retrovirus associated long non coding RNA in human adenocarcinoma

2015
Genome Med
PMCID: 4375928
PMID: 25821520
DOI: 10.1186/s13073-015-0142-6

[…] etwork project. Because full transcriptome assembly requires significant compute resources we opted to analyze TCGA RNA-seq data specifically for EVADR expression using the targeted de novo assembler TASR [], which is much faster in situations where transcriptome-wide information is not required. To convert TASR-derived assemblies to expression values, we tallied assembled sequence reads and calcu […]

TASR institution(s)
Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada

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