nebiolabs/ampseer
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.
RustAGPL-3.0
Issues
- 0
bioconda package
#10 opened by DrYak - 0
Add an option to specify confidence threshold, stop reading once there is enough data
#8 opened by bwlang - 0
Add confidence estimation feature
#7 opened by bwlang - 2
Failing tests
#6 opened by mattsoup - 0
Handle very similar amplicon schemes
#2 opened by bwlang - 1
Doesn't compile on linux
#4 opened by mattsoup - 1
Test file doesn't exist
#5 opened by mattsoup - 0
Add example output to readme
#3 opened by bwlang - 1
handle nextera fragmented libraries
#1 opened by bwlang