ngs-analysis
There are 8 repositories under ngs-analysis topic.
- Language:Python 163
harbourlab / SparK
Publication quality NGS track plotting
Language:Python 102CenterForMedicalGeneticsGhent / WisecondorX
WisecondorX — An evolved WISECONDOR
Language:Python 86hyunhwan-jeong / SalmonTE
SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances
Language:Jupyter Notebook 79BU-ISCIII / iskylims
is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.
Language:Python 62- Language:Python 60
JhuangLab / BioInstaller
A comprehensive R package to construct interactive and reproducible biological data analysis applications based on the R platform
Language:R 56PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification.
Language:Shell 37- Language:Shell 35
- Language:Perl 34
- CSBB-Shiny
praneet1988 / CSBB-Shiny
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
Language:R 33 amarinderthind / RNA-seq-tutorial-for-gene-differential-expression-analysis
This tutorial is created for educational purpose
Language:R 27- Language:Python 25
sib-swiss / NGS-variants-training
GitHub for the SIB courses NGS - Genome variant analysis
Language:Shell 25ncbi / cwl-ngs-workflows-cbb
A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis
Language:Common Workflow Language 24- graphsim
TomKellyGenetics / graphsim
R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)
Language:R 22 - ELeFHAnt
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
Language:R 21 gitHBDX / TransfoRNA
TransfoRNA: Navigating the Uncertainties of Small RNA Annotation with an Adaptive Machine Learning Strategy
Language:Jupyter Notebook 20Genometric / MSPC
Using combined evidence from replicates to evaluate ChIP-seq peaks
Language:C# 19- STingLanguage:C++ 19
PavlidisLab / rnaseq-pipeline
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Language:Python 19SouthGreenPlatform / TOGGLE
Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis
Language:Perl 18ANGSD-wrapper / angsd-wrapper
Utilities for analyzing next generation sequencing data.
Language:Shell 14- Language:Java 14
afrendeiro / toolkit
A toolkit for NGS analysis with Python
Language:Python 13- Language:Python 13
mccoy-lab / LD-PGTA
Linkage disequlibrium-informed PGT-A (LD-PGTA). A package for detecting genotypic signatures of aneuploidy from extremely low-coverage sequence data.
Language:Python 12- workshop-ngsintro
NBISweden / workshop-ngsintro
Workshop • Intro to Bioinformatics using NGS data • 5 days
Language:HTML 12 SIB course that introduces analysis of NGS data
Language:Shell 11adrientaudiere / MiscMetabar
R package MiscMetabar: Miscellaneous functions for metabarcoding analysis
Language:R 10soedinglab / BaMMmotif2
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.
Language:C++ 10ArcInstitute / ScreenPro2
Flexible analysis of high-content CRISPR screening
Language:Python 9Crazzy-Rabbit / Script-in-Bio
生物信息学分析中用到的脚本
Language:Jupyter Notebook 8- Language:HTML 8
RIVM-bioinformatics / AmpliGone
A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment
Language:Python 8- Language:R 7
