Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
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Updated
Jun 12, 2024 - Nextflow
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Rapid large-scale prokaryote pan genome analysis
Java utilities for Bioinformatics
SPAdes Genome Assembler
A curated list of resources for learning bioinformatics.
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
A tool to circularize genome assemblies
Antimicrobial Resistance Identification By Assembly
Finds SNP sites from a multi-FASTA alignment file
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)
NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
Rare variant test software for next generation sequencing data
Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
A set of tools to analyse the output from TraDIS analyses
NGLess: NGS with less work
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