sourmash-bio / 2022-search-sra-with-mastiffLinks
Tools and utilities for making use of mastiff
☆12Updated 2 years ago
Alternatives and similar repositories for 2022-search-sra-with-mastiff
Users that are interested in 2022-search-sra-with-mastiff are comparing it to the libraries listed below
Sorting:
- BEAV: Bacterial Element Annotation reVamped☆66Updated 8 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆60Updated this week
- Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.☆26Updated 2 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 2 months ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆64Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆46Updated 5 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆59Updated last year
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 5 months ago
- ☆29Updated 2 years ago
- Using ggtree to build phylogenetic trees☆47Updated 8 months ago
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆59Updated 3 months ago
- Prediction of prophages from bacterial genomes☆79Updated last month
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 3 weeks ago
- Estimate metagenomic coverage and sequence diversity☆54Updated 11 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- IS mapping software☆56Updated 3 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆49Updated last year
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆86Updated 11 months ago
- Automatic Assembly For The Fungi☆23Updated 6 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆90Updated 2 weeks ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆56Updated 3 years ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- A toolbox for improving metagenome-assembled genomes.☆63Updated 4 years ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆38Updated 3 weeks ago
- A toolkit for prokaryotic comparative genomics☆50Updated 6 months ago
- A pipeline for the identification of fungi in public metagenomics datasets☆16Updated 4 years ago