Finding variations in mitochondrial genomes
I am a beginner in ngs data analysis.I want to construct a linux based pipeline for finding variatioins in mitochondriala(mt) genomes (in fastq format) from revised cambridge reference sequence(in fasta format).? I there anyone to tell me how to construct this pipeline ??
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rbagnall
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ammarsabir15
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ammarsabir15
1 answer
A pipeline to sequence mitochondrial genome from off-target exome sequence data:
http://www.ncbi.nlm.nih.gov/pubmed/22669646
I found this to work well and the Python scripts are available from the Nature Methods website.
There is and another approach, called Mitoseek (not tested by me):
http://www.ncbi.nlm.nih.gov/pubmed/23471301
with scripts available at github:
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