xbiome / StrainPanDA
A method for reconstruction of subspecies composition and functional profiles from metagenomic data
☆12Updated 5 months ago
Related projects ⓘ
Alternatives and complementary repositories for StrainPanDA
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Updated 8 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated 5 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last week
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- Strain-level taxonomic classification of metagenomic data using pangenome graphs☆16Updated this week
- ☆10Updated last year
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 3 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆21Updated last year
- Microbial agile accurate SNP Typer☆29Updated 10 months ago
- Detect contigs of complete circular genomes☆21Updated 5 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆40Updated 3 weeks ago
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆17Updated 2 months ago
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆15Updated 2 years ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated last year
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 4 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 7 months ago
- TAXnomic Profile Aggregation and STAndardisation☆34Updated 3 weeks ago
- strain-level analysis tools☆33Updated last month
- Plasmid analysis using rearrangement distances☆30Updated last week
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago
- ☆16Updated 4 years ago
- Drug Resistance Prediction with Reference Graphs☆19Updated last year
- Prediction of microbial interactions in complex communities☆12Updated 3 months ago
- metagenome population recombination rate estimation pipeline☆12Updated 3 months ago
- software to identify primers that can distinguish genomes☆20Updated 3 weeks ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆17Updated 3 years ago