bioinf-mcb / gisaid-scrapper
Scrapping tool for GISAID data regarding SARS-CoV-2
☆41Updated last year
Alternatives and similar repositories for gisaid-scrapper
Users that are interested in gisaid-scrapper are comparing it to the libraries listed below
Sorting:
- Download all EpiCoV sequcnes from GISAID☆32Updated 2 years ago
- Fast and flexible ORF finder☆69Updated 3 years ago
- ARTIC SARS-CoV-2 workflow and reporting☆51Updated 2 weeks ago
- Protein Alignment and Detection Interface☆61Updated last year
- Variant Calling Pipeline Using GATK4 and Nextflow☆54Updated 2 years ago
- Primer schemes for real-time genome epidemiology☆27Updated last year
- Programmatically interact with the GISAID database.☆76Updated last month
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago
- viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data☆27Updated 7 months ago
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated last year
- SARS-CoV-2 workflow for nanopore sequence data☆40Updated last month
- Parse GFF3 into Pandas dataframes☆27Updated last year
- Snakemake pipelines for nanopore sequencing data archiving and processing☆90Updated 3 years ago
- Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:☆86Updated last year
- Merging paired-end reads and removing adapters☆44Updated last month
- Metagenome analysis using the Kraken software suite☆31Updated 2 years ago
- Tip and tricks for BAM files☆85Updated 6 years ago
- ☆69Updated 4 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆66Updated 2 weeks ago
- Automated Sanger Analysis Pipeline (ASAP): a tool for rapidly analyzing Sanger sequencing data with minimum user interference.☆25Updated 3 months ago
- A catalogue of available long read sequencing data analysis tools☆78Updated 2 months ago
- Reference-guided multiple sequence alignment of viral genomes☆68Updated 4 months ago
- Pair-End AssembeR☆33Updated 11 years ago
- NastyBugs: a simple method for extracting antimicrobial resistance information from metagenomes☆21Updated 6 years ago
- A versatile toolkit for k-mers with taxonomic information☆77Updated 9 months ago
- Influenza genome analysis Nextflow workflow☆26Updated last month
- Flash2 has some improvements from flash_1 including new logic from innie and outie overlaps as well as some initial steps for flash for a…☆50Updated 7 years ago
- Updated Kraken DB install scripts to cope with new-ish NCBI structure☆46Updated 7 years ago
- Demonstrating best practices for bioinformatics command line tools☆116Updated 4 years ago
- A general metagenomics data mining system focus on robust microbiome research☆57Updated 7 months ago