CDCgov / seqsender
Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
☆38Updated last month
Alternatives and similar repositories for seqsender
Users that are interested in seqsender are comparing it to the libraries listed below
Sorting:
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆27Updated this week
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆34Updated this week
- Split Kmer Analysis☆64Updated 2 years ago
- Recombination-free trees☆58Updated last month
- UPHL's Reference Free Pipeline☆26Updated last week
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated last month
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Bioinformatics Pipeline and Visualization resources☆55Updated 8 months ago
- SC2 variant detection and composition pipeline☆17Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- ASMNGS20 - 2020 Conference Details☆15Updated 2 years ago
- Harmonization of AMR predictor tool outputs☆26Updated 4 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆33Updated 5 months 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 3 years ago
- Bacterial surveillance pipeline.☆24Updated this week
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆14Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated last month
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 3 years ago
- Order and orientation of complete bacterial genomes☆27Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Updated 8 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 10 months ago
- Systematic ProtEin AnnotatoR☆19Updated 6 months ago