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  3. Chicago

Issues

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Issues (51–75 of 82)

Title T P Status Votes Assignee Created Updated Actions
#68: parameters setting for double cutters GATC (DpnII) and GANTC
proposal major new 3
#67: Error during Runchicago.R
bug critical new 1
#66: Bait Coordinates don't intersect with .rmap file
bug major new
#61: install Chicago Error: Failed to install 'unknown package' from Bitbucket:
bug major new
#65: Error during runChicago.R
bug major new
#64: runChicago.R: The Brownian OE factors look weird
bug minor new
#60: Error in if (cj == upper) next : missing value where TRUE/FALSE needed Calls: chicagoPipeline -> normaliseOtherEnds -> .addTLB -> cut2
bug major new
#62: OLwithSI in peakEnrichment4Features
bug minor new
#56: bam2chicago.sh error: empty baitOnRight.bedpe file
bug major new
#59: runChicago.R error | designing-directory not parsing
bug major new
#58: runChicago.R error with design directory
bug major new
#57: Using juicer .hic for creating input files for Chicago
task critical new
#55: readAndMerge() different outputs everytime I run it
bug major new
#53: Small capture library
enhancement major new
#49: Assign designDir path to a Chicago object
task major new
#46: About bam2chicago.sh error
bug major new
#45: Can't change --removeb2b value when I'm doing the design file
bug major new
#44: WashU output
bug major new
#40: problems with calibration
task major new
#41: bam2chicago problem
bug major new
#39: after hicup, rmap baitmap and runchicago.r
enhancement major new
#37: makeDesignFiles.py compatible with python3
proposal major new
#35: Cut2 odd behaviour
bug major new
#34: why there is significant difference in chicago output , when valid pairs are used from HiC Pro and HiCUP and which one is reliable ? and why chicago output also gives trans interaction as significant ?
proposal minor new
#33: bam2chicago.sh worng number of fields
bug major new
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