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cluster:73 [2019/07/23 14:45] hmeij07 [Python3] |
cluster:73 [2019/09/23 12:05] hmeij07 [R & R/parallel] |
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Added to both 3.5.2 versions\\ | Added to both 3.5.2 versions\\ | ||
+ | '' | ||
--- // | --- // | ||
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* 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. | ||
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</ | </ | ||
+ | |||
+ | |||
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====== 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(does not exist), randomforest, | ||
+ | |||
+ | < | ||
+ | |||
+ | 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 | ||
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export PATH=/ | export PATH=/ | ||
export LD_LIBRARY_PATH=/ | export LD_LIBRARY_PATH=/ | ||
+ | |||
+ | export PATH=/ | ||
+ | export LD_LIBRARY_PATH=/ | ||
</ | </ |