cbg-ethz / cojac
☆18Updated 3 months ago
Related projects: ⓘ
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆25Updated 2 months ago
- Primer schemes for real-time genome epidemiology☆27Updated last year
- Gene-flank analysis tool☆25Updated 4 months ago
- Recombination-free trees☆55Updated last year
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated last year
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆25Updated 11 months ago
- Add new taxa or taxonomic groups to the NCBI Taxdump files☆18Updated 4 years ago
- ☆31Updated last month
- Automated strain separation of low-complexity metagenomes☆47Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆46Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆51Updated last year
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆34Updated 9 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆42Updated 4 years ago
- Visualize whole genome alignments as linear maps☆69Updated last year
- ASMNGS20 - 2020 Conference Details☆15Updated 2 years ago
- Select primer sets for selective whole genome amplification (SWGA)☆33Updated 5 years ago
- A SARS-CoV-2 Mutation Pattern Query Tool☆17Updated last year
- Influenza genome analysis Nextflow workflow☆22Updated last month
- PoSeiDon: positive selection detection and recombination analysis pipeline☆35Updated 2 years ago
- Split Kmer Analysis☆62Updated 2 years ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆35Updated 2 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆27Updated last week
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆35Updated last month
- rapidly rid reads of horrid humans☆15Updated 2 years ago
- ☆43Updated 2 months ago
- snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.☆14Updated 4 months ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆44Updated 2 years ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆29Updated 3 years ago
- Locus and lineage tests for bacterial GWAS☆30Updated 6 years ago
- SHOOT.bio - the phylogenetic search engine☆24Updated last year