Finn-Lab / MAG_Snakemake_wfLinks
Recovery of prokaryotic genomes from shotgun metagenomic sequencing data
☆62Updated 4 years ago
Alternatives and similar repositories for MAG_Snakemake_wf
Users that are interested in MAG_Snakemake_wf are comparing it to the libraries listed below
Sorting:
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆77Updated 8 months ago
- Horizontal gene transfer (HGT) identification pipeline☆62Updated 2 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆49Updated 4 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆75Updated last week
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆123Updated last year
- A pipeline for nanopore long-read metagenomic analysis.☆47Updated 3 months ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆77Updated 2 years ago
- Development version of Easyfig☆100Updated last year
- A toolbox for comparative genomics.☆103Updated 4 years ago
- ☆57Updated last year
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆87Updated last year
- Supporting code for uncultivated gut virus manuscript☆73Updated 2 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆47Updated 2 years ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆99Updated 5 months ago
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆58Updated 6 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- ☆50Updated 4 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆70Updated 4 years ago
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆46Updated 4 years ago
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆135Updated last year
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆85Updated 4 months ago
- DDBJ Fast Annotation and Submission Tool☆82Updated last week
- Metatranscriptomics Tutorial☆63Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 4 months ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆56Updated last year
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆87Updated last year
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆70Updated 3 years ago
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated 2 years ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆71Updated 4 months ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆47Updated 5 months ago