dahak-metagenomics / dahak
benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
☆21Updated 6 years ago
Alternatives and similar repositories for dahak:
Users that are interested in dahak are comparing it to the libraries listed below
- Build sourmash databases for genbank.☆12Updated last year
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆47Updated 3 years ago
- A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆43Updated 4 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- De novo Extraction of Strains from MetAgeNomes☆69Updated 4 years ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆40Updated 4 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Recombination-free trees☆57Updated last year
- A method of assessing sequence complexity based on kmer frequencies☆31Updated 6 years ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 3 years ago
- ✏️ Genome assembly polishing & SNV detection☆66Updated this week
- GATB Minia assembly pipeline☆30Updated 2 years ago
- Find Unique genomic Regions☆29Updated last month
- Rapid competitive read demulitplexer. Made with tries.☆24Updated last year
- TAXnomic Profile Aggregation and STAndardisation☆35Updated 3 months ago
- Split Kmer Analysis☆63Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- Extract lineage CSVs from NCBI for use with sourmash lca.☆28Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆23Updated 10 months ago
- A pipeline for detecting mis-assemblies in metagenomic assemblies.☆14Updated 7 years ago
- Remove human reads from a sequencing run☆36Updated 4 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 7 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 7 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- Estimate metagenomic coverage and sequence diversity☆48Updated 6 months ago