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Create merged observation tool #58

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rdocking opened this issue Oct 21, 2017 · 2 comments
Open

Create merged observation tool #58

rdocking opened this issue Oct 21, 2017 · 2 comments

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@rdocking
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Similar to #57

From BEDPE-formatted input for multiple files, create a merged file indicating presence/absence for a given tool.

i.e., a tool that takes as input BEDPE-formatted results from Fusioncatcher, PAVfinder, etc, and produces output that looks like:

chrom1 start1  end1    chrom2  start2  end2    name    score   strand1 strand2 orient1 orient2 fusioncatcher pavfinder
chr1 1 2 chr2 1 2 FOO-BAR 100 + + + + 1 0

Or:

chrom1 start1  end1    chrom2  start2  end2    name    score   strand1 strand2 orient1 orient2  observations
chr1 1 2 chr2 1 2 FOO-BAR 100 + + + + fusioncatcher,pavfinder
@rdocking
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BEDPE files are on ORCA at:

/home/projects/hackseq17_3/pipeline_results/

@wilcas wilcas removed their assignment Oct 21, 2017
@rdocking
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I will give this a quick shot with R to see where we can get to.

@rdocking rdocking removed their assignment Oct 22, 2017
@wilcas wilcas removed their assignment Oct 22, 2017
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