barricklab / breseqLinks
breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It is intended for haploid microbial genomes (<20 Mb). breseq is a command line tool implemented in C++ and R.
☆177Updated 2 months ago
Alternatives and similar repositories for breseq
Users that are interested in breseq are comparing it to the libraries listed below
Sorting:
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆248Updated this week
- A user-friendly workflow for phylogenomics☆225Updated this week
- A tool to circularize genome assemblies☆251Updated last year
- Download files from NCBI Entrez by accession☆134Updated last year
- Pipeline for metabolic annotation of microbial genomes☆150Updated 10 months ago
- Bacterial ribosomal RNA predictor☆279Updated 3 weeks ago
- Convert various sequence formats to FASTA☆146Updated last month
- Classifier for metagenomic sequences☆270Updated 7 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆287Updated this week
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆223Updated 2 weeks ago
- Processing pipeline for pan-genome visulization and exploration☆143Updated 2 years ago
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆202Updated 5 months ago
- CAMISIM: Simulating metagenomes and microbial communities☆221Updated this week
- snipit: summarise snps relative to your reference sequence☆166Updated 3 weeks ago
- Application and Python module for average nucleotide identity analyses of microbes.☆217Updated 7 months ago
- Open-source usearch☆128Updated 5 months ago
- PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…☆183Updated last week
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆158Updated 7 months ago
- HyPhy: Hypothesis testing using Phylogenies☆249Updated last week
- FunGAP: fungal Genome Annotation Pipeline☆111Updated 8 months ago
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆177Updated this week
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆133Updated last week
- Build a partitioned pangenome graph from microbial genomes☆292Updated last month
- Pan-genome wide association studies☆205Updated last year
- Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…☆158Updated 9 months ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆208Updated last year
- A robust, extensible metagenomics pipeline☆174Updated this week
- BSR-Based Allele Calling Algorithm☆147Updated this week
- ☆231Updated this week
- Short Read Sequence Typing for Bacterial Pathogens☆145Updated 4 years ago