ilevantis

Bedtools Cheatsheet

General:

Tools	Description
flank	Create new intervals from the flanks of existing intervals.
slop	Adjust the size of intervals.
shift	Adjust the position of intervals.
subtract	Remove intervals based on overlaps b/w two files.

hubgit

Search PubMed for articles in the PMC Open Access Subset for which free full text (i.e. XML) is available:
http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&retmode=xml&term=pubmed+pmc+open+access%5Bfilter%5D+AND+free+full+text%5Bfilter%5D

Find the PMCID for an article by PMID:
http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&db=pmc&retmode=xml&linkname=pubmed_pmc&id=24191168

Fetch full text article XML from PMC by PMCID:
http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&id=3804407

A PMC article for which the full text XML is not available:

arq5x

Thanks to @Adrian_H, @RoryKirchner, @genetics_blog, 
          @leonidkrugliak, @Graham_Coop, @yokofakun, 
          @pathogenomenick, @caseybergman, @Jalfoldi, 
          @Paul_R_Johnston, @gknoProject, @David_Dobbs, 
          @vsbuffalo, @robinhenig, @nccomfort, 
          @GholsonLyon, @notSoJunkDNA, @neilfws, 
          @rovingpencil, @rtraborn

In addition, please refer to Casey Bergman's collection of other books:
http://www.librarything.com/catalog/xylem&tag=genetics&collection=-1

rodw

#!/bin/bash 
# A simple script to backup an organization's GitHub repositories.

#-------------------------------------------------------------------------------
# NOTES:
#-------------------------------------------------------------------------------
# * Under the heading "CONFIG" below you'll find a number of configuration
#   parameters that must be personalized for your GitHub account and org.
#   Replace the `<CHANGE-ME>` strings with the value described in the comments
#   (or overwrite those values at run-time by providing environment variables).