hanh1985

pdfx

Extract text, metadata and references (pdf, url, doi, arxiv) from PDF. Optionally download all referenced PDFs.

pdfextract

MOVED TO https://gitlab.com/crossref/pdfextract

ParsCit

An open-source CRF Reference String Parsing Package

icages

iCAGES (integrated CAncer GEnome Score) is an effective tool for prioritizing cancer driver genes for a patient

CfdnaPattern

Pattern Recognition for Cell-free DNA

MutScan

Detect and visualize target mutations by scanning FastQ files directly

awesome-bio-datasets

awesome-bio-datasets

stanford_dl_ex

Programming exercises for the Stanford Unsupervised Feature Learning and Deep Learning Tutorial

TDAmapper

(R package) Analyze High-Dimensional Data Using Discrete Morse Theory

tensorflow

TensorFlow for R

nanocall

An Oxford Nanopore Basecaller

Nucleosome_ctDNA

Inferring expressed genes by whole-genome sequencing of plasma DNA

NA12878

Data and analysis for NA12878 genome on nanopore

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

vim-plug

:hibiscus: Minimalist Vim Plugin Manager

seqan

SeqAn's official repository.

vscode-ftp-sync

Ftp Sync plugin for Visual Studio Code

OpenGene.jl

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

scholar.py

A parser for Google Scholar, written in Python

artyfarty

ggplot2 theme + palette presets

kallisto

Near-optimal RNA-Seq quantification

RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

docker-images

Repository of Docker images created by Anaconda

SMC-RNA-Challenge

bioinformatics

Bioinformatics tools developed at Roche NimbleGen

cutadapt

Cutadapt removes adapter sequences from sequencing reads

VarDict

VarDict

bam-readcount

Count bases in BAM/CRAM files

sinvict

SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA

progress

Linux tool to show progress for cp, mv, dd, ... (formerly known as cv)