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addressing software versions

software error gatk best practices written 6 months ago by prasundutta87 • 190

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Determining the subjects to use after obtaining a PC plot of population substructure

gwas population stratification best practices written 13 months ago by Sheila • 240

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Forum: What are your "model" examples for bioinformatics programming?

github coding forum rna-seq best practices written 3.1 years ago by Dan D ♦ 6.5k • updated 3.1 years ago by Pierre Lindenbaum ♦ 111k

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Recent Replies

C: Struggle with awk command by cpad0112 • 8.3k
outside awk, min variable can be had from: `min=$(datamash min 2 < test.txt)`
C: pfam enrichment analysis of RNAseq data by Michael Dondrup ♦ 44k
Btw, don't get me wrong, these tools are great. If one can get their hands on PFAM terms assigned...
C: why is there still duplication after extracting aligned read exactly 1 time? by Titus • 670
Do you have an example of read ? Could it be reads aligned in 2 different part of the genome ?
A: why is there still duplication after extracting aligned read exactly 1 time? by ATpoint ♦ 6.6k
You are mixing up vocabulary. Duplication means that the exact same DNA fragment has been sequenc...
C: pfam enrichment analysis of RNAseq data by Michael Dondrup ♦ 44k
This might be a bit bold as an answer, but AFAIK and as unlikely as it might seem, such an online...
C: Struggle with awk command by ATpoint ♦ 6.6k
`bc` is a basic calculator in bash, allowing to deal with floating point numbers, e.g. `bc <&l...
C: Deseq2: What is the most correct experimental design for this experiment? by Devon Ryan ♦ 82k
OK, in that case you don't actually need to model `time`. I'm assuming you did your library prepa...
C: Struggle with awk command by Bastien Hervé • 1.7k
Thanks, could you explain the `bc <<<` please
C: Struggle with awk command by Bastien Hervé • 1.7k
Throught this was intuitive, thanks
C: writing function for logistic regression by Jean-Karim Heriche ♦ 16k
> I want to see the correlation... Then compute correlation coefficients. What is the quest...
A: Struggle with awk command by dariober ♦ 9.3k
To pass a variable to awk you can use the `-v` option like this (not tested): awk -v min=$mi...
A: Struggle with awk command by ATpoint ♦ 6.6k
## First get the minimum: MIN=$(bc <<< $(sort -k2,2n in.file | awk 'NR == 1 {pri...

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