nebiolabs / ampseerLinks
Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing library they are read from. It is intended to differentiate between ARTIC v3, ARTIC v4, ARTIC v4.1, VarSkip 1a, VarSkip 2, Midnight and VarSkip Long primer sets sequenced by Illumina or ONT.
☆14Updated last year
Alternatives and similar repositories for ampseer
Users that are interested in ampseer are comparing it to the libraries listed below
Sorting:
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆38Updated 2 months ago
- Read contamination removal☆25Updated last year
- Whole genome core alignments from multiple draft genomes☆13Updated 8 years ago
- Library of sketching functions used by PopPUNK☆31Updated 2 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 2 months ago
- NCBI Pathogen Detection Portal toolkit☆11Updated last year
- Genome size estimation from long read overlaps☆57Updated 2 months ago
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 7 months ago
- Remove human reads from a sequencing run☆40Updated 8 months ago
- ☆21Updated 3 months ago
- software to identify primers that can distinguish genomes☆21Updated 5 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- Fast viral consensus genome reconstruction☆23Updated 2 weeks ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆57Updated last year
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Updated 10 months ago
- Recombination-free trees☆58Updated 3 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 11 months ago
- List and download schemes from pubMLST.org and other BIGSDB servers☆10Updated 8 months ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- SARs-CoV-2 Primer schemes☆16Updated last month
- µbinfie blog☆17Updated 3 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last month
- Drug Resistance Prediction with Reference Graphs☆21Updated last year
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- Pneumococcal Capsular Typing tool for NGS data☆17Updated 4 years ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 3 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- Intra-species bacterial contamination detection☆25Updated 4 months ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆19Updated last month