faraz's repositories
xcode.beta
SLURM job temps @UALBANY
atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline.
baseqDrops
A versatile and lightning fast package for processing 10X, inDrop and Drop-seq data.
blotter
bedford lab research
Books
Collection of Programming, Databases, Linux & Tools Books
build-your-own-x
🤓 Build your own (insert technology here)
cgat
CGAT - Computational Genomics Analysis Tools
checkMyIndex
Search for a set of compatible indexes for your sequencing experiment
epuRate
A clean R Markdown template for your reports
Folder-Structure-Conventions
Folder / directory structure options and naming conventions for software projects
font-awesome
Shim repository for Font Awesome.
In-depth-NGS-Data-Analysis-Course
Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.
Intro-to-ChIPseq
Intro to ChIPseq using HPC
jasper
Full-featured Jekyll port of Ghost's default theme Casper đź‘»
jekyll
:globe_with_meridians: Jekyll is a blog-aware static site generator in Ruby
markdown-here
Google Chrome, Firefox, and Thunderbird extension that lets you write email in Markdown and render it before sending.
nf-hack17-tutorial
Nextflow basic tutorial for newbie users
numerical-linear-algebra
Free online textbook of Jupyter notebooks for fast.ai Computational Linear Algebra course
opentrons
Software for writing protocols and running them on Opentrons robots
shiny-wordcloud
Example dockerized Shiny App
test-datasets
Test data to be used for automated testing with the nf-core pipelines.
UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets