bhattlab / StrainSifterLinks
A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).
☆19Updated 7 years ago
Alternatives and similar repositories for StrainSifter
Users that are interested in StrainSifter are comparing it to the libraries listed below
Sorting:
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆39Updated last year
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- Highly sensitive pathogen detection☆11Updated 5 years ago
- OPAL: Open-community Profiling Assessment tooL☆29Updated 8 months ago
- Influenza genome analysis Nextflow workflow☆23Updated 3 weeks ago
- A Shotgun Metagenome Annotation Pipeline☆23Updated 8 years ago
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Updated last year
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated 2 years ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes☆28Updated 10 months ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- CAMITAX: Taxon labels for microbial genomes☆30Updated last year
- Bioinformatics pipeline for nanopore sequencing data☆11Updated 6 years ago
- Strain Resolution ON Graphs☆47Updated 2 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- A program for degenerate primer design for broad taxonomic-range PCR for microbial ecology studies☆32Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- GC Skew Test for Bacterial Genomes☆29Updated 3 years ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- MetaCompass: Reference-guided Assembly of Metagenomes☆38Updated last month
- FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…☆24Updated 4 years ago
- Dadaist2 🟨 Highway to R☆13Updated 7 months ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆62Updated 5 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- ☆26Updated 2 years ago