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[Pruning] Seismic #124

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[Pruning] Seismic #124

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c352c39
added seismic to event callers
ShaiberAlon Jan 7, 2022
6ecbfcd
small fix for seismic footprint
ShaiberAlon Jan 7, 2022
d04d6bc
merged changes from master
ShaiberAlon Jan 7, 2022
4336149
fix typo for cases with more than one seismic
ShaiberAlon Jan 9, 2022
19e8adf
make sure indexes are charachters to avoid issues
ShaiberAlon Jan 9, 2022
5dfb7f2
also accept bedpe.gz for jJ
ShaiberAlon Jan 12, 2022
972550c
made some fixes for seismic() and also implemented a wrapper for the …
ShaiberAlon Jan 12, 2022
7601e99
fix the way we construct the sv data.table for input to seismic amp d…
ShaiberAlon Jan 13, 2022
5c47cb9
reorganize seismic related functions
ShaiberAlon Jan 18, 2022
642a612
annotating seismic.rosswog for Rosswog et al. calls and also allowing…
ShaiberAlon Jan 20, 2022
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also accept bedpe.gz for jJ
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@ShaiberAlon
ShaiberAlon committed Jan 12, 2022
commit 5dfb7f26582cdba0df349da11faffc1cfef833b3
2 changes: 1 addition & 1 deletion R/converters.R
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Original file line number Diff line number Diff line change
Expand Up @@ -909,7 +909,7 @@ read.juncs = function(rafile,
ra = readRDS(rafile)
## validity check written for "junctions" class
return(Junction$new(ra))
} else if (grepl('(.bedpe$)', rafile)){
} else if (grepl('bedpe(\\.gz)?$', rafile)){
ra.path = rafile
cols = c('chr1', 'start1', 'end1', 'chr2', 'start2', 'end2', 'name', 'score', 'str1', 'str2')

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