There are 8 repositories under ngs-analysis topic.
Publication quality NGS track plotting
WisecondorX — An evolved WISECONDOR
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.
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.
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 tutorial is created for educational purpose
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)
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
TransfoRNA: Navigating the Uncertainties of Small RNA Annotation with an Adaptive Machine Learning Strategy
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Using combined evidence from replicates to evaluate ChIP-seq peaks
Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis
A toolkit for NGS analysis with Python
Utilities for analyzing next generation sequencing data.
Linkage disequlibrium-informed PGT-A (LD-PGTA). A package for detecting genotypic signatures of aneuploidy from extremely low-coverage sequence data.
Flexible analysis of high-content CRISPR screening
Workshop • Intro to Bioinformatics using NGS data • 5 days
R package MiscMetabar: Miscellaneous functions for metabarcoding 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.
生物信息学分析中用到的脚本
A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment