chiulab / surpiLinks
SURPI
☆85Updated 9 years ago
Alternatives and similar repositories for surpi
Users that are interested in surpi are comparing it to the libraries listed below
Sorting:
- qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.☆81Updated 4 years ago
- ONT assembly and Illumina polishing pipeline☆89Updated 4 years ago
- Updated Kraken DB install scripts to cope with new-ish NCBI structure☆47Updated 8 years ago
- ☆79Updated 4 years ago
- Long-read mock community experiments☆105Updated 4 years ago
- ☆84Updated 2 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 9 years ago
- a signal-level demultiplexer for Oxford Nanopore reads☆126Updated 4 years ago
- A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).☆92Updated last year
- Development version of Easyfig☆100Updated last year
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆130Updated 2 years ago
- LoFreq Star: Sensitive variant calling from sequencing data☆107Updated 3 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆58Updated last year
- de novo virus assembler of Illumina paired reads☆57Updated 4 years ago
- Long-read metagenomic analysis☆105Updated 2 years ago
- Assembly statistic visualisation☆90Updated last year
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- "Reads to report" for public health and clinical microbiology☆141Updated last year
- An ultrafast optimal aligner for mapping large NGS data to large genome databases.☆57Updated last year
- An imagemagick-like frontend to Biopython SeqIO☆116Updated last year
- Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules☆87Updated 7 years ago
- PacBio hybrid error correction through iterative short read consensus☆60Updated 6 years ago
- Calculates the lowest common ancestors of each query sequence in a Blast result☆31Updated 7 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated last year
- Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0/☆80Updated 5 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- DDBJ Fast Annotation and Submission Tool☆83Updated last month
- Recentrifuge: robust comparative analysis and contamination removal for metagenomics☆98Updated 5 months ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆63Updated 2 years ago