patrickwest / EukRep
Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
☆69Updated 7 months ago
Alternatives and similar repositories for EukRep:
Users that are interested in EukRep are comparing it to the libraries listed below
- A toolbox for comparative genomics.☆99Updated 3 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆43Updated 3 years ago
- Reorients assembled microbial sequences☆106Updated this week
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆70Updated last year
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆62Updated 4 years ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆71Updated 4 months ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆87Updated last year
- DDBJ Fast Annotation and Submission Tool☆78Updated 3 weeks ago
- Horizontal gene transfer (HGT) identification pipeline☆56Updated last year
- A tool for generating consensus long-read assemblies for bacterial genomes☆87Updated this week
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆73Updated last year
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆113Updated last month
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆27Updated last year
- ☆79Updated last year
- scripts for estimating bacteria replication rates based on population genome copy number variation☆70Updated 5 years ago
- Prediction of prophages from bacterial genomes☆73Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆114Updated last year
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆53Updated 3 weeks ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆28Updated 4 years ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆59Updated 4 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 3 years ago
- IS mapping software☆53Updated 3 years ago
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆42Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆51Updated 8 months ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆44Updated last month
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 4 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆56Updated this week
- A pipeline for running AMRfinderPlus and collating results into functional classes☆72Updated 4 months ago