Genomic interval operations on Pandas DataFrames

Publication quality NGS track plotting

SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances

is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.

HemTools: a collection of NGS pipelines and bioinformatic analyses

生物信息学项目实践仓库🏆🥇

A comprehensive R package to construct interactive and reproducible biological data analysis applications based on the R platform

PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification.

Metagenomic pipeline and other general scripts used in the lab.

Computational Suite for Bioinformaticians and Biologists (CSBB) is a RShiny application developed with an intention to empower researchers from wet and dry lab to perform downstream Bioinformatics analysis

This RNAseq data analysis tutorial is created for educational purpose

Flexible analysis of high-content CRISPR screening

Project Manager for NGS data analysis

A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis

GitHub for the SIB courses NGS - Genome variant analysis

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

群体遗传学分析中用到的script和skill等

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.

Ensemble Learning for Harmonization and Annotation of Single Cells (ELeFHAnt) provides an easy to use R package for users to annotate clusters of single cells, harmonize labels across single cell datasets to generate a unified atlas and infer relationship among celltypes between two datasets. It uses an ensemble of three machine learning classifiers 1) RF 2) SVM and 3) LR

R package MiscMetabar: Miscellaneous functions for metabarcoding analysis

A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment

Using combined evidence from replicates to evaluate ChIP-seq peaks

Ultrafast sequence typing and gene detection from NGS raw reads

TransfoRNA: Navigating the Uncertainties of Small RNA Annotation with an Adaptive Machine Learning Strategy

Linkage disequlibrium-informed PGT-A (LD-PGTA). A package for detecting genotypic signatures of aneuploidy from extremely low-coverage sequence data.

Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis

SIB course that introduces analysis of NGS data

Bayesian Markov Model motif discovery tool version 2 - An expectation maximization algorithm for the de novo discovery of enriched motifs as modelled by higher-order Markov models.

Workshop • Intro to Bioinformatics using NGS data • 5 days

Utilities for analyzing next generation sequencing data.