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script to parse SL3.0 chrs using SL2.93 TPF files and extract contigs #63

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suryasaha opened this issue Feb 12, 2017 · 0 comments

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suryasaha commented Feb 12, 2017

Compare list of gap sizes from SL2.93 TPF file to stretches of N's in chr to identify start/stop coordinates.

Account for contamination fixes

chloroplast contamination https://github.com/solgenomics/data/issues/60
arabidopsis contamination https://github.com/solgenomics/data/issues/22

Output

Fasta of contigs
TPF with temp contig names and correct gap sizes

suryasaha assigned MFlores2021

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