ctSkennerton / minced
Mining CRISPRs in Environmental Datasets
☆100Updated last year
Related projects ⓘ
Alternatives and complementary repositories for minced
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆110Updated last year
- Download files from NCBI Entrez by accession☆111Updated 2 months ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆84Updated last year
- fast phage annotation program☆148Updated this week
- In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given…☆81Updated 6 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆84Updated last year
- a tool for inferring species tree from sequencing reads☆144Updated this week
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆128Updated this week
- DDBJ Fast Annotation and Submission Tool☆78Updated last month
- ONT assembly and Illumina polishing pipeline☆91Updated 3 years ago
- viralVerify: viral contig verification tool☆65Updated 3 years ago
- FunGAP: fungal Genome Annotation Pipeline☆109Updated last year
- Exploring the "dusk matter" of the RNA virosphere☆35Updated 2 years ago
- Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0/☆80Updated 4 years ago
- geNomad: Identification of mobile genetic elements☆193Updated last week
- Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…☆145Updated 2 months ago
- "Reads to report" for public health and clinical microbiology☆136Updated 8 months ago
- Systematic search of all known anti-phage systems.☆77Updated 2 weeks ago
- Foreign Contamination Screening caller scripts and documentation☆107Updated this week
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆56Updated 7 months ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆124Updated last month
- Assessing the quality of metagenome-derived genome bins using machine learning☆174Updated 5 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…☆129Updated this week
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆110Updated last week
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆107Updated last week
- Supporting code for uncultivated gut virus manuscript☆66Updated last year
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆67Updated 2 years ago
- Similarity networks of biosynthetic gene clusters☆73Updated this week
- Open-source usearch☆100Updated 5 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 5 months ago