JangKeun Kim's repositories
cheatsheets-1
RStudio Cheat Sheets
asap_reproducibility
Reproducing all analyses and figures for the ASAP-seq paper
asap_to_kite
CL python script to reformat CITEATAC fastqs for kite (kallisto | bustools) processing
atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
bashscripting-2874016
Learning Bash Scripting
bioinformatics
Code inspired by Bioinformatics Algorithms: an Active Learning Approach.
CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
compGenomRData
Data for book
DE-Analysis-Basic-Tutorial
This repository contains a basic tutorial on performing differential expression analysis using r and the Bioconductor package.
dsb
Normalize CITEseq Data
gggenomes
A grammar of graphics for comparative genomics
inspiration4-omics
Scripts run during processing and analysis of Inspiration4 omics data.
logomaker
Software for the visualization of sequence-function relationships
MetaMaps
Long-read metagenomic analysis
mgatk
mgatk: mitochondrial genome analysis toolkit
salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
sockeye
Single Cell Transcriptomics
SoupX
R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
STAR
RNA-seq aligner
TOBIAS
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
VGenes
VGene development