arsheed's repositories
dropSeqPipe
A SingleCell RNASeq pre-processing snakemake workflow
atac-seq-pipeline
ENCODE ATAC-seq pipeline
atac_dnase_pipelines
ATAC-seq and DNase-seq processing pipeline
ataqv
A toolkit for QC and visualization of ATAC-seq results.
awesome-single-cell
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
bioinformatics-one-liners
Bioinformatics one liners from Ming Tang
BISCUIT_SingleCell_IMM_ICML_2016
R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
cbioportal
cBioPortal for Cancer Genomics
cellranger
10x Genomics Single Cell 3' Gene Expression and VDJ Assembly
Complete-Python-3-Bootcamp
Course Files for Complete Python 3 Bootcamp Course on Udemy
datahub
A centralized location for storing curated data ready for inclusion in cBioPortal.
gdc-docs
Official repository for GDC User Guides in Markdown format
github-slideshow
A robot powered training repository :robot:
hopr
This is the development site for Hands-On Programming with R, a book that teaches how to program in R, with hands-on examples. Read the book at https://rstudio-education.github.io/hopr.
jokergoo.github.io
personal website
msi-ipython-nb-ex
Example IPython notebooks for MSI
ngs-1
NGS Language Bindings
pilon
Pilon is an automated genome assembly improvement and variant detection tool
scPipe
a pipeline for single cell RNA-seq data analysis
scRNA.seq.course
Analysis of single cell RNA-seq data course
scSplit
Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples within a mixed population.
ShinyOmics
Exploration of Omics data
single_cell_portal_core
Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
SingleR
SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
TCGAbiolinks
TCGAbiolinks
tutorial-dlframework
Step-by-step tutorial to improve understanding of common operators in Deep Learning frameworks.