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anthill_sri011 [2019/07/06 19:19] – tmatejuk | anthill_sri011 [2023/08/01 01:08] (current) – external edit 127.0.0.1 | ||
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==== prepare software ==== | ==== prepare software ==== | ||
- | Login to anthill23 and download rMATS along with some test datasets, and gft files((downloading this files will take about 12 minutes)): | + | Login to anthill23 and download rMATS along with some test datasets, and gft files((downloading this files will take about 3 minutes)): |
@anthill23: | @anthill23: | ||
| | ||
- | mkdir -p ~/ | + | mkdir -p ~/ |
cd ~/ | cd ~/ | ||
wget https:// | wget https:// | ||
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exit | exit | ||
- | ==== sbatch example: ==== | + | ==== sbatch example ==== |
Bellow example was taken form [[http:// | Bellow example was taken form [[http:// | ||
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export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/ | export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/ | ||
- | python rMATS.4.0.2/ | + | python rMATS.4.0.2/ |
+ | --b1 b1.txt | ||
+ | --b2 b2.txt | ||
+ | --gtf gtf/ | ||
+ | --od bam_test | ||
+ | -t paired | ||
+ | --readLength 50 \ | ||
+ | --cstat 0.0001 | ||
+ | --libType fr-unstranded | ||
</ | </ | ||
- | |||
- | Run computation with '' | ||
==== performance tests ==== | ==== performance tests ==== | ||
None. At this time. | None. At this time. | ||
- | < | ||
- | ... | ||
- | </ | ||