Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.
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feature request: support space in filepaths in BAM config file #20
We've worked around this by making symlinks, but it would be nice if the BAM config file were more robust when parsing the first column w/ the BAM filepaths. perhaps it could either respect escaping spaces (Spa\ ce), or allow quoting the filepath?
We've worked around this by making symlinks, but it would be nice if the BAM config file were more robust when parsing the first column w/ the BAM filepaths. perhaps it could either respect escaping spaces (Spa\ ce), or allow quoting the filepath?