Mercurial > repos > dpryan79 > star
changeset 1:73b48146d0f7 draft default tip
Hopefully the final update
| author | dpryan79 |
|---|---|
| date | Tue, 18 Apr 2017 16:16:55 -0400 |
| parents | ccf3e976e367 |
| children | |
| files | .shed.yml README.rst rg_rnaStar.xml |
| diffstat | 3 files changed, 5 insertions(+), 19 deletions(-) [+] |
line wrap: on
line diff
--- a/.shed.yml Tue Apr 18 10:44:24 2017 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,14 +0,0 @@ -categories: -- Next Gen Mappers -description: RNA STAR is an ultra fast universal RNA-seq aligner -long_description: | - An ultra fast universal RNA-seq aligner that can optionally perform gene-level quantification on the fly. - - Note that while very fast, this tool requires a considerable amount of memory. As an example, hg19 requires about 30GB. See http://gettinggeneticsdone.blogspot.com.au/2012/11/star-ultrafast-universal-rna-seq-aligner.html - - Most of this wrapper was originally written by Jeremy Goecks, with kibbitzing and - automated dependency installation by Ross Lazarus. -name: rgrnastar -owner: iuc -remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar -type: unrestricted
--- a/README.rst Tue Apr 18 10:44:24 2017 -0400 +++ b/README.rst Tue Apr 18 16:16:55 2017 -0400 @@ -3,7 +3,7 @@ =================== - **Memory**: To run efficiently, RNA-STAR requires enough free memory to - hold the SA-indexed reference genome in RAM. For Human Genome hg19 this is - index about 27GB and running RNA-STAR requires approximately ~30GB of RAM. - For custom genomes the rule of thub is to multiply the size of the - reference FASTA file with 9 to get the estimated required amount of RAM. + hold the SA-indexed reference genome in RAM. For Human Genome hg19 this + index is about 27GB and running RNA-STAR requires approximately ~30GB of RAM. + For custom genomes, the rule of thub is to multiply the size of the + reference FASTA file by 9 to estimated required amount of RAM.
--- a/rg_rnaStar.xml Tue Apr 18 10:44:24 2017 -0400 +++ b/rg_rnaStar.xml Tue Apr 18 16:16:55 2017 -0400 @@ -423,7 +423,7 @@ </actions> </data> - <data name="reads_per_gene" format="tabular" label="${tool.name} on ${on_string}: reads per gene quantMode is '${quantMode}'" from_work_dir="ReadsPerGene.out.tab"> + <data name="reads_per_gene" format="tabular" label="${tool.name} on ${on_string}: reads per gene" from_work_dir="ReadsPerGene.out.tab"> <filter>quantMode is True</filter> </data> </outputs>