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.
bwlang
commented
2 years ago
Running the first command in the readme:
samtools bam2fq: Cannot read file "tests/fixtures/vss2_small.bam": No such file or directory