Fasih Ahsan's repositories
GlnFateGatekeeper
All notebooks for data processing and visualization in Lu et al., Glutamine dependent signaling controls pluripotent stem cell fate. Developmental Cell (2022) https://doi.org/10.1016/j.devcel.2022.02.003
atac-seq-pipeline
ENCODE ATAC-seq pipeline
chipseq_pipeline
AQUAS TF and histone ChIP-seq pipeline
fahsan.github.io
fahsan.github.io
GSEApy
Gene Set Enrichment Analysis in Python
gtex-pipeline
GTEx Consortium data production and analysis pipelines
hello-world
Introduction to the Repository.
jupyternotebooks
Jupyter notebooks for bioinformatics data analysis.
rsemimport
Import expected gene counts, TPM, and length from custom RSEM import into gene count matrices for DESeq2 analysis.
polarMito
Visualization of mitochondrial DNA NGS reads or densities using ggplot2 graphics.
RNASeqMiscFiles
Miscellaneous RNA-Sequencing scripting files for data analysis.
spectral
A jekyll theme for the spectral template by html5up.net (@n33co). Demo: http://arkadianriver.github.io/spectral. How to jekyll: http://jekyllrb.com/docs/home/. If you intend to use this theme as a blog site with more than a few pages, have a look at my fork at https://github.com/arkadianriver/arkadianriver.com
TeitellLab_RNAseq
RNAseq DGE pipeline for Teitell Lab data.