Identification of chloroplast genome in whole genome contigs
Hello,
I have a whole genome contigs from a certain plant specie and I would like to identify the chloroplast genome in those contigs, can anyone please guide me through the process. I will be very much thankful to you.
Best regards.
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bioramg •
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faizansaleem1992 •
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faizansaleem1992 •
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If the chloroplast genome is available in NCBI then follow the instructions in @Pierre's post here: How can I use BLAST to extract chloroplast sequences from DNA reads?
You could also use
bbsplit.shfrom BBMap suite to separate the plant genome reads from chloroplast ones.