Barrick Lab :: Computational Protocols
Unix Commands Quick Reference
Collection of useful Unix commands.
SSH Public Key Authentication
How to set up login without typing password between Linux machines.
Rename files via command line
How to use sed to rename multiple files in a single directory.
Leave a command running on a remote machine after logging out
How to start a command in a ssh session, and leave it running after logging out of the current window.
Mass File Extraction
Simple script for 'un-tar'ing and 'un-zip'ing all .tar.gz files in a single directory
Next generation sequencing data analysis
Cloning DCAMP repository
Instructions for DCAMP repository, and getting permissions to push back to the repository.
GSAF Sequence Retrieval and Backup
Instructions for downloading and backing up data sent by UT GSAF.
Sample splitting using IBCs
Instructions for splitting pooled samples into individual samples based on internal barcodes.
Generate Genome Diff (.gd) Files From .fastq Files
Instructions for generating .gd files from .fastq files.
Flexbar Commands for Trimming Adapter Sequences
Command line tools for trimming adapter sequence from NGS reads.
Analyzing RNA-Seq data
Analyzing RNA-Seq data for differential expression.
Publicly Archiving Data
Uploading data and obtaining an accession number from GenBank, SRA, and Dryad databases.
How to set up the BEACON teleconference in GDC7.808
How to use regular expressions to parse through input files using Python.
Useful R packages for manipulating and presenting data.
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Topic revision: r11 - 02 Jun 2016 - 13:42:00 - Main.SimonDAlton
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