niekwit
Bioinformatician @ University of Cambridge working in the labs of Prof. James Nathan and Prof. Paul Lehner
University of CambridgeCambridge, UK
Pinned Repositories
camrcs
Python script for backing up lab data to RCS
crispr-screens
Snakemake workflow for CRISPR-Cas9 screen analysis
crispr_docs
CRISPR-Cas screening docs
cut_and_run
Snakemake workflow for Cut & Run
damid-seq
Snakemake workflow for DamID-Seq analysis
os_setup
pycrispr
Pip package for CRISPR-Cas9 screen analysis
rna-seq-salmon-deseq2
Snakemake workflow for RNA-Seq differential transcript analysis using Salmon/Deseq2
rna-seq-star-tetranscripts
Snakemake workflow for transposable element RNA-Seq using TEtranscripts
snakefetch
A tool to fetch workflow and config files from a Snakemake repository on GitHub
niekwit's Repositories
niekwit/crispr-screens
Snakemake workflow for CRISPR-Cas9 screen analysis
niekwit/pycrispr
Pip package for CRISPR-Cas9 screen analysis
niekwit/rna-seq-salmon-deseq2
Snakemake workflow for RNA-Seq differential transcript analysis using Salmon/Deseq2
niekwit/snakefetch
A tool to fetch workflow and config files from a Snakemake repository on GitHub
niekwit/camrcs
Python script for backing up lab data to RCS
niekwit/crispr_docs
CRISPR-Cas screening docs
niekwit/cut_and_run
Snakemake workflow for Cut & Run
niekwit/damid-seq
Snakemake workflow for DamID-Seq analysis
niekwit/os_setup
niekwit/pycod
Designs oligos for custom sgRNA libraries
niekwit/pyseqtools
Tools for NGS data analysis
niekwit/rna-seq-star-tetranscripts
Snakemake workflow for transposable element RNA-Seq using TEtranscripts
niekwit/seq-tools
niekwit/eclipdemux
demultiplex utility for eclip raw fastq files (process eclip barcodes and ramdomers)
niekwit/find_peaks_py
Python port of original find_peaks program in Perl. Find and merge significant peaks based on false discovery rate.
niekwit/GC-MS-tools
Tools for GC/MS
niekwit/ms_tools
niekwit/niekwit.github.io
niekwit/RNA-Seq
RNA-Seq pipeline
niekwit/snakemake-wrappers
niekwit/USP43
niekwit/bioinformatic-one-liners
niekwit/CRISPR-tools
Pipeline for CRISPR-Cas9 screen analysis
niekwit/scripts_ravi
niekwit/snakesuite
Multiple NGS snakemake workflows
niekwit/chip-seq
Snakemake workflow for ChIP-Seq analysis
niekwit/clipseq
The primary analysis pipeline for CLIP samples.
niekwit/PPHLN1_2024
niekwit/rip-seq
Snakemake workflow for RIP-seq
niekwit/rna-seq-star-deseq2
Snakemake workflow for RNA-Seq differential transcript analysis using STAR/Deseq2