HRGV / phyloFlashLinks
phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
☆88Updated 2 years ago
Alternatives and similar repositories for phyloFlash
Users that are interested in phyloFlash are comparing it to the libraries listed below
Sorting:
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆116Updated last year
- A toolbox for pangenome analysis and threshold evaluation.☆101Updated 3 years ago
- Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file☆73Updated last year
- Horizontal gene transfer (HGT) identification pipeline☆63Updated 2 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆78Updated 2 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆87Updated last year
- A toolbox for comparative genomics.☆105Updated 4 years ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆146Updated 3 weeks ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆48Updated 2 years ago
- DAS Tool☆159Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- CLI tool to annotate genes with KOfam☆85Updated 2 years ago
- ☆69Updated this week
- IS mapping software☆56Updated 3 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆29Updated 5 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆78Updated last month
- Making whole bacterial genome sequencing data analysis easy☆113Updated 6 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆49Updated 4 years ago
- ☆54Updated 3 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆92Updated 2 months ago
- ☆50Updated 4 years ago
- Best-fit model selection☆85Updated last year
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆81Updated 10 months ago
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆167Updated 3 weeks ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆140Updated 2 months ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆120Updated last month
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆62Updated 4 years ago
- DDBJ Fast Annotation and Submission Tool☆83Updated last month