Please a collection of studies reporting anthocyanin losses on the respective wiki page. This table is based on AdditionalFile1 described in our publication, but can be extended over time. Please get in touch if you have a study that should be included here.

Reads in a FASTQ file downloaded from the SRA are renamed to enable a Trinity assembly that requires a specific read header format.

PE mode:
python2 rename_reads_for_trinity.py --fwin <FILE> --rvin <FILE> --fwout <FILE> --rvout <FILE>
SE mode:
python2 rename_reads_for_trinity.py --fwin <FILE> --fwout <FILE>

Arguments:
--fwin      STR   Forward input FASTQ file
--rvin      STR   Reverse input FASTQ file
--fwout     STR   Forward output FASTQ file
--rvout     STR   Reverse output FASTQ file

--fwin specifies a forward read input FASTQ file.

--rvin specifies a reverse read input FASTQ file.

--fwout specifies a forward read output FASTQ file.

--rvout specifies a reverse read output FASTQ file.

Recinos Marin, F. M. & Pucker, B. (2024). Genetic factors explaining anthocyanin pigmentation differences. bioRxiv 2023.06.05.543820; doi: 10.1101/2023.06.05.543820