dahak-metagenomics / dahakLinks
benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
☆21Updated 7 years ago
Alternatives and similar repositories for dahak
Users that are interested in dahak are comparing it to the libraries listed below
Sorting:
- Build sourmash databases for genbank.☆11Updated 2 years ago
- Estimating k-mer coverage histogram of genomics data☆77Updated 2 years ago
- De novo Extraction of Strains from MetAgeNomes☆71Updated 5 years ago
- A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆45Updated 4 years ago
- Pan-Genomic Matching Statistics☆55Updated last year
- Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.☆50Updated 4 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆65Updated 5 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆77Updated 9 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- k-mer counting software☆39Updated 3 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 4 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆51Updated 3 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Updated 4 years ago
- Extract lineage CSVs from NCBI for use with sourmash lca.☆29Updated 2 years ago
- REINDEER REad Index for abuNDancE quERy☆56Updated 5 months ago
- de novo virus assembler of Illumina paired reads☆58Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Antibiotic resistance predictions in minutes on a laptop☆50Updated 6 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆36Updated 6 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Updated last month
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆47Updated 3 years ago
- Recombination-free trees☆62Updated 3 months ago
- Error correction for Oxford Nanopore data☆47Updated 4 years ago
- Split Kmer Analysis☆66Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- ☆30Updated last year
- Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules☆88Updated 7 years ago
- Histosketching Using Little Kmers☆56Updated 2 years ago