cluster:73
Differences
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| Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
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cluster:73 [2019/07/23 13:05] hmeij07 [Python3] |
cluster:73 [2019/09/24 12:08] hmeij07 [R & R/parallel] |
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| Line 83: | Line 83: | ||
| Added to both 3.5.2 versions\\ | Added to both 3.5.2 versions\\ | ||
| + | '' | ||
| --- // | --- // | ||
| Line 96: | Line 97: | ||
| terminado-0.8.2 | terminado-0.8.2 | ||
| widgetsnbextension-3.5.0 | widgetsnbextension-3.5.0 | ||
| + | json5-0.8.5 | ||
| + | jupyterlab-1.0.2 | ||
| + | jupyterlab-server-1.0.0 | ||
| + | tornado-6.0.3 | ||
| </ | </ | ||
| Line 256: | Line 261: | ||
| * www: http:// | * www: http:// | ||
| - | ====== Kallisto & Trinity ====== | + | ====== Kallisto & Trinity |
| + | |||
| + | **FastQC** A quality control tool for high throughput sequence data. | ||
| + | |||
| + | * '' | ||
| + | * location: / | ||
| + | * https:// | ||
| **kallisto** is a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. | **kallisto** is a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. | ||
| Line 372: | Line 384: | ||
| </ | </ | ||
| + | |||
| + | |||
| Line 1811: | Line 1825: | ||
| ====== R & R/parallel ====== | ====== R & R/parallel ====== | ||
| + | * R 3.6.1 (running against " | ||
| + | * New java jdk-12.0.2 (by default in your path) | ||
| + | * packages lme4 and tidyverse installed (dependencies=TRUE) | ||
| + | * https:// | ||
| + | * packages: mice, rpart, party, caret, randomforest, | ||
| + | * note: had to make a link to omp.h from gcc 4.8.4 to OS native gcc...works? | ||
| + | |||
| + | < | ||
| + | |||
| + | export PATH=/ | ||
| + | export LD_LIBRARY_PATH=/ | ||
| + | export PATH=/ | ||
| + | export LD_LIBRARY_PATH=/ | ||
| + | export PATH=/ | ||
| + | export LD_LIBRARY_PATH=/ | ||
| + | |||
| + | #export PATH=/ | ||
| + | #export LD_LIBRARY_PATH=/ | ||
| + | |||
| + | </ | ||
| * R 3.5.1 (new libcurl package) | * R 3.5.1 (new libcurl package) | ||
| - | * Uses same old java home 1.7.0_21, should remember to update | + | * Uses same old java home 1.7.0_21 |
| * package lme4 installed | * package lme4 installed | ||
| Line 1822: | Line 1856: | ||
| export PATH=/ | export PATH=/ | ||
| export LD_LIBRARY_PATH=/ | export LD_LIBRARY_PATH=/ | ||
| + | |||
| + | export PATH=/ | ||
| + | export LD_LIBRARY_PATH=/ | ||
| </ | </ | ||
cluster/73.txt · Last modified: 2024/05/15 12:58 by hmeij07
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