sk-sahu

Nextflow Error codes list

Running on google life-sciences

Check exit staus - https://cloud.google.com/life-sciences/docs/troubleshooting#error_codes

sk-sahu

Enhance the bash terminal

This is personal set of snipets from diffrent source to make the terminal more friendly to work

Open ~/.bashrc add any of the following snippets.

Pretty CSV in terminal

## Pretty CSV in terminal 

sk-sahu

#!/bin/bash

# Require: GNU-parallel, sra-tools, parallel-fastq-dump
# Permision: chmod 777 get_fastq_from_SRA.sh
# Usage: ./get_fastq_from_SRA.sh SRA_acc_list.txt 4

sra_acc_list=$1 # in .txt file
threads=$2

sort -u $sra_acc_list | parallel -j $threads "prefetch {}"

sk-sahu

### Keybase proof

I hereby claim:

  * I am sk-sahu on github.
  * I am sksahu (https://keybase.io/sksahu) on keybase.
  * I have a public key ASD2_xuj7uhZ8tRX2k_ZIE50oQ7OM233qt1UeMR4J7x5wgo

To claim this, I am signing this object:

sk-sahu

List of blogs in the field of Genomics and Bioinfomatics

• Mick Watson's Opiniomics
• Keith Robison's Omics! Omics!
• James Hadfield's Enseqlopedia
• Homolog.us
• Keith Bradnam's ACGT
• Living in an Ivory Basement
• Avril Coghlan's avrilomics
• Lior Pachter's Bits of DNA
• Dave Tang's blog