tharvesh Goto Github PK

bc_md

calitas

chrom3d

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

gen_seg

gget

gget enables efficient querying of genomic databases, such as Ensembl, UniProt, NCBI, directly into a Python or terminal programming environment. It was designed to support genomic data analysis.

ggxmean

goexpress

This is a read-only mirror of the Bioconductor SVN repository. Contributions: https://github.com/kevinrue/GOexpress. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=GOexpress. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/GOexpress

hicbricks

HiCBricks offers user-friendly and efficient solutions for handling large high-resolution Hi-C datasets. The package provides a R/Bioconductor framework with the bricks to build more complex data analysis pipelines and algorithms.

hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

igv

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

imp_data_analysis_codes_r

Snippets for NGS EDA

labs

Scripts for HarvardX courses: PH525x

metbrewer

Color palette package in R inspired by works at the Metropolitan Museum of Art in New York

nature_protocols_chrom3d_data_and_scripts

ng_tad_clique_analysis

paper3

poster_barcelona

Poster

preprocess_script

pure-bash-bible

📖 A collection of pure bash alternatives to external processes.

pybedtools

Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)

qorts

Quality of RNA-Seq Toolset

rafalib

rseqc

RNA-Seq Quality Control: Generates QC metrics for RNA-Seq data using the RSeQC suite; a graphical report of these metrics can be viewed on the DNAnexus website

section_03

somalier

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

tcr-pmhc

tharvesh.github.io

vcflib

a simple C++ library for parsing and manipulating VCF files, + many command-line utilities