wumed

wumed's Stars

• GordonLab/riesling-pipeline

  RIESLING: Super-enhancer identification. (Rapid Identification of EnhancerS LInked to Nearby Genes)

  Language:Python104

• romanhaa/Cerebro

  Visualization of scRNA-seq data.

  Language:HTML9419

• JovMaksimovic/bpipe-pipelines

  Basic bpipe pipeline stages and pipelines for RNA/DNAseq analysis.

  Language:Groovy72

• ropensci/iheatmapr

  Complex, interactive heatmaps in R

  Language:R26736

• hammerlab/melanoma-reanalysis

  Online Materials: Somatic Mutations, Neoepitope Homology and Inflammation in Melanomas Treated with CTLA-4 Blockade

  47

• QijinYin/DeepHistone

  Language:Python164

• Biobix/proteoformer

  Integration ribosome profiling - mass spectrometry

  Language:Python147

• stepf/RiboPip

  An alignment and analysis pipeline for Ribo-seq and RNA-seq data

  Language:Ruby43

• schatzlab/scikit-ribo

  Accurate estimation and robust modelling of translation dynamics at codon resolution

  Language:Python188

• zhpn1024/ribotish

  Ribo-seq TIS Hunter, predicting translation initiation sites and ORFs using riboseq data

  Language:Python257

• TickingClock1992/RIdeogram

  Language:R16223

• UofLBioinformatics/CSI-UTR

  A pipeline for detecting differential expression of 3-prime UTRs

  Language:Perl31

• CostaLab/reg-gen

  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

  Language:Python10530

• Dowell-Lab/DAStk

  Differential ATAC-seq toolkit

  Language:Python277

• aslihankarabacak/FootprintPipeline

  Pipeline to find transcription factor footprints in DNase-seq or ATAC-seq datasets

  Language:Makefile122

• YaqiangCao/cLoops

  Accurate and flexible loops calling tool for 3D genomic data.

  Language:Python10917

• higlass/higlass-app

  A fully featured application around HiGlass for viewing, exploring, and annotating 1D and 2D genomic data

  Language:JavaScript74

• csoneson/ARMOR

  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data

  Language:R16032

• chunjie-sam-liu/GSCALite

  GSCALite: Gene set for cancer analysis

  Language:R2314

• gjhunt/dtangle

  Cell type deconvolution from high-throughput gene expression profiling experiments.

  Language:HTML318

• ny-shao/IDEA

  Interactive Differential Expression Analyzer

  Language:JavaScript1

• ylab-hi/ScanNeo

  A pipeline for identifying indel derived neoantigens using RNA-Seq data

  Language:Python297

• mdozmorov/genomerunner_web

  Web version of GenomeRunner

  Language:JavaScript115

• IndrajeetPatil/ggstatsplot

  Enhancing {ggplot2} plots with statistical analysis 📊📣

  Language:R2k190

• d2l-ai/d2l-zh

  《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被70多个国家的500多所大学用于教学。

  Language:Python63.4k11k

• shenlab-sinai/ngsplot

  Quick mining and visualization of NGS data by integrating genomic databases

  Language:R25765

• ababaian/LIONS

  LIONS is a bioinformatic analysis pipeline which brings together a few pieces of software and some home-brewed scripts to annotate a paired-end RNAseq library to detect TE-intiated transcripts

  Language:PostScript2713

• crazyhottommy/ChIP-seq-analysis

  ChIP-seq analysis notes from Ming Tang

  Language:Python750295

• YangLab/bamTobw

  Convert BAM files to bigWig files with a simple command

  Language:Shell2010

• inab/BIOLITMAP

  Code for the paper "BIOLITMAP: a web-based geolocated and temporal visualization of the evolution of bioinformatics publications" in Oxford Bioinformatics.

  Language:Python203