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afrendeiro/fasta.fa

Last active January 10, 2019 16:31
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pybedtools error related to pybedtools#147
Raw
fasta.fa
>chr1
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGC
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGC
Raw
pybedtools_example.py
import pybedtools
fasta = "fasta.fa"
bed_file = "regions.bed"
bed = pybedtools.BedTool(bed_file)
bed.nucleotide_content(fi=fasta)
Raw
pybedtools_example.sh
bedtools nuc -fi fasta.fa -bed regions.bed
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