The final version of our article “Putative origin and maternal relatedness of male sperm whales (Physeter macrocephalus) recently stranded in the North Sea” is now online available and I want to share the given “Share Link” which provides 50 days’ free access to the article with you:
we had a fasta file with unwanted redundancy.
Reads were mapped to a reference and then each match was extracted with an ID and sequence, to which this ID mapped. This resulted in a redundancy in IDs. Our goal was to get only one ID for each sequence.
I often have to extract specific sequences from big fasta. I found this nice script here and with some slight modifications you can also use it for other file types.
The larger project my master’s thesis was a part of has been submitted and can be found in pre-press here: Foerster et al. 2017
I’m very thankful to have been a part of such an interesting project, which provides new insights and knowledge about the use and development of SNP-panels, as well as using this method for genetic wildlife monitoring.