This shows you the differences between two versions of the page.
Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
cluster:73 [2021/08/19 13:01] hmeij07 [Kallisto & Trinity & FastQC] |
cluster:73 [2021/08/30 17:46] hmeij07 [Paleogenomics Tools] |
||
---|---|---|---|
Line 510: | Line 510: | ||
* centos7 R v 3.6.0 | * centos7 R v 3.6.0 | ||
* use your HPC username and credentials | * use your HPC username and credentials | ||
+ | |||
+ | < | ||
+ | |||
+ | # native OS installation for rstudio | ||
+ | /bin/R | ||
+ | |||
+ | </ | ||
====== DMTCP ===== | ====== DMTCP ===== | ||
Line 634: | Line 641: | ||
</ | </ | ||
- | * https:// | + | |
* The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. | * The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. | ||
* requires centos7 (glibc) so queues mwgpu, amber128, exx96 | * requires centos7 (glibc) so queues mwgpu, amber128, exx96 | ||
Line 643: | Line 650: | ||
</ | </ | ||
+ | |||
+ | * **adapterremoval** https:// | ||
+ | * **bwa** https:// | ||
+ | * **bowtie2** http:// | ||
+ | |||
+ | These are all part of Miniconda3, to setup the environment consult | ||
+ | |||
+ | < | ||
+ | |||
+ | [hmeij@greentail52 ~]$ conda list | egrep " | ||
+ | adapterremoval | ||
+ | bowtie2 | ||
+ | bwa | ||
+ | |||
+ | </ | ||
+ | |||
Line 964: | Line 987: | ||
* location: / | * location: / | ||
* https:// | * https:// | ||
- | * biolab (jcoolon, tearley) | + | |
+ | * queues: hp12, tinymem, mw256fd mw128 | ||
+ | * debug server swallowtail | ||
+ | | ||