Shamir-Lab / Recycler
This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye Rozov, Aya Brown Kav, David Bogumil, Naama Shterzer, Eran Halperin, Itzhak Mizrahi, and Ron Shamir
☆58Updated 3 years ago
Alternatives and similar repositories for Recycler:
Users that are interested in Recycler are comparing it to the libraries listed below
- ☆52Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated 11 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 11 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆43Updated 4 years ago
- ☆80Updated last year
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- de.NBI Nanopore Training Course☆20Updated 2 years ago
- Add new taxa or taxonomic groups to the NCBI Taxdump files☆20Updated 5 years ago
- Generates an NCBI .tbl file of annotations on a genome.☆66Updated 7 years ago
- Visualize whole genome alignments as linear maps☆71Updated 6 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads☆25Updated 2 years ago
- Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…☆31Updated last year
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆23Updated 6 years ago
- Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers☆33Updated last year
- Split Kmer Analysis☆62Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- IS mapping software☆53Updated 3 years ago
- The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.☆40Updated this week
- Synteny Imager☆60Updated 6 months ago
- Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.☆23Updated last month