Course material in notebook format for learning about single cell bioinformatics methods

Near-optimal RNA-Seq quantification

Inferring CNV from Single-Cell RNA-Seq

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

R package for bcbio RNA-seq analysis.

A example pipeline for WGS resequencing analysis

WGS analysis pipeline for rare disorder

Statistical analysis for WGS paper

R script used to identify SNPs present in coding region of genes from VCF files

Training and demo material for whole-genome analysis craft

Structural variation analysis pipeline for cancer genomes

WGS and Exome analysis pipeline

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file form…

A tool for estimating repeat sizes

A suite of tools for detecting expansions of short tandem repeats

By study this, it won't be costly or time-consuming to customize a NGS data analysis pipeline

Quick mining and visualization of NGS data by integrating genomic databases

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

Single-cell analysis in Python. Scales to >1M cells.

R script for visualizing exon-exon junctions in genomic sequencing reads

Variant Calling Tool for Circular Consensus Sequencing

Benchmark datasets for WGS analysis

Whole Genome Sequenceing Structural Variation Pipelines

WGS Pipeline

A fast and sensitive gapped read aligner

This repo contains tutorials for different NGS analysis methods