smirarab / sepp
Ensemble of HMM methods (SEPP, TIPP, UPP)
☆91Updated 8 months ago
Alternatives and similar repositories for sepp
Users that are interested in sepp are comparing it to the libraries listed below
Sorting:
- Genome mapping and spliced alignment of cDNA or amino acid sequences☆102Updated 3 months ago
- ☆128Updated 8 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆114Updated 11 months ago
- Create a tree using Mash distances☆164Updated last year
- breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is inte…☆161Updated last month
- Bioinformatics program inStrain☆166Updated last week
- Error correction for Illumina RNA-seq reads☆66Updated last year
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆185Updated 10 months 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…☆140Updated 2 weeks ago
- a tool for inferring species tree from sequencing reads☆149Updated 3 months ago
- WtP: Phage identification via nextflow and docker or singularity☆105Updated this week
- An imagemagick-like frontend to Biopython SeqIO☆115Updated last year
- DDBJ Fast Annotation and Submission Tool☆80Updated 2 weeks ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆89Updated 5 months ago
- Bioinformatics tool for Locus Visualisation☆104Updated this week
- viralVerify: viral contig verification tool☆69Updated 3 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆122Updated last year
- FunGAP: fungal Genome Annotation Pipeline☆111Updated last year
- Pan-genome wide association studies☆195Updated 11 months ago
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments☆104Updated last year
- A scalable bacterial genome assembly, annotation and analysis pipeline☆73Updated last year
- Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redunda…☆155Updated 5 months ago
- SKESA assembler☆117Updated 7 months ago
- a short-read polishing tool for long-read assemblies☆159Updated 11 months ago
- Find clustered hits from a BLAST search☆114Updated 5 months ago
- Pipeline for metabolic annotation of microbial genomes☆146Updated last month
- Follow up to Grace Blackwell's 661k dataset, for 2023☆102Updated 3 weeks ago
- The ARTIC field bioinformatics pipeline☆122Updated last week
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆115Updated 2 months ago
- Assembled Genomes Compressor☆162Updated 5 months ago