Pinned Repositories
sincei
A user-friendly toolkit for QC, counting, clustering and plotting of single-cell (epi)genomics data
deepTools
Tools to process and analyze deep sequencing data.
HiCExplorer
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
pyGenomeTracks
python module to plot beautiful and highly customizable genome browser tracks
snakepipes
Customizable workflows based on snakemake and python for the analysis of NGS data
cage_pipeline
Pipeline for CAGE data analysis using icetea
doctorRbite
An updated R Markdown thesis template using the bookdown package, for University of Freiburg
icetea
R/Bioconductor package for analysis of single and paired-end capped-RNAseq data (CAGE/RAMPAGE/MAPCap)
reproChecklist
#eLifeAmbassadors reviewer's checklist for assessing reproducibility of computational methods in life science publications
Subread_to_DEXSeq
Scripts to import your FeatureCounts output into DEXSeq
vivekbhr's Repositories
vivekbhr/Subread_to_DEXSeq
Scripts to import your FeatureCounts output into DEXSeq
vivekbhr/reproChecklist
#eLifeAmbassadors reviewer's checklist for assessing reproducibility of computational methods in life science publications
vivekbhr/cage_pipeline
Pipeline for CAGE data analysis using icetea
vivekbhr/doctorRbite
An updated R Markdown thesis template using the bookdown package, for University of Freiburg
vivekbhr/icetea
R/Bioconductor package for analysis of single and paired-end capped-RNAseq data (CAGE/RAMPAGE/MAPCap)
vivekbhr/dhx-alu
Scripts related to DHX-Alu project
vivekbhr/scRiboQuant
single-cell ribosomal profiling analysis workflow
vivekbhr/academic_hugo
vivekbhr/atom
:atom: The hackable text editor
vivekbhr/bigspring-hugo-startup-theme
vivekbhr/cicero-release
vivekbhr/deepTools
Tools to process and analyze deep sequencing data.
vivekbhr/ecosystem-packages
Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)
vivekbhr/GamestonkTerminal
The next best thing after Bloomberg Terminal
vivekbhr/hugo-apsho
vivekbhr/images-metaresearch
shiny app for imaging meta-research
vivekbhr/kallisto
Near-optimal RNA-Seq quantification
vivekbhr/loompy
Python implementation of the Loom file format - http://loompy.org
vivekbhr/MethylDackel
A (mostly) universal methylation extractor for BS-seq experiments.
vivekbhr/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
vivekbhr/MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
vivekbhr/myScripts
A bunch of non-generic scripts that I use in my projects
vivekbhr/phd_thesis_markdown
Template for writing a PhD thesis in Markdown
vivekbhr/phdThesis
My PhD Thesis, using Rmd and LATEX
vivekbhr/rangeR
complex operations with GRanges
vivekbhr/scRIApipe
single-cell RNA Isoform Analysis Pipeline
vivekbhr/shinychecklist
Easily create interactive checklists with shiny
vivekbhr/snakepipes
Snakemake workflows and wrappers for NGS data processing
vivekbhr/snakepit
Collection of snakemake workflows
vivekbhr/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks