lcolladotor/derfinder issues and pull requests

#46 - [Help required] setting cutoff

Issue - State: open - Opened by Dalhte about 1 year ago

#45 - BiocParallel errors when running regionMat()

Issue - State: open - Opened by rosshandler over 1 year ago - 1 comment

#44 - Coverage matrix for regions

Issue - State: open - Opened by Prakrithi-P over 1 year ago - 1 comment

#43 - v1.27.3 -- use mcols() instead of values()

Pull Request - State: closed - Opened by hpages over 3 years ago - 1 comment

#42 - typo README

Pull Request - State: closed - Opened by c1au6i0 over 3 years ago - 3 comments

#41 - Need help with makeModels() testvar error

Issue - State: closed - Opened by fruce-ki almost 7 years ago - 7 comments

#40 - Question about the need for species and chromosome style

Issue - State: closed - Opened by fruce-ki over 7 years ago - 2 comments

#39 - namespace issues re: `tibble`?

Issue - State: closed - Opened by andrewejaffe over 7 years ago - 1 comment

#38 - filterData not providing feedback

Issue - State: closed - Opened by fomightez almost 8 years ago - 3 comments

#37 - doesn't load on R 3.3

Issue - State: closed - Opened by andrewejaffe about 8 years ago - 3 comments

#36 - `targetSize` and `totalMapped` should be required inputs for `regionMatrix`

Issue - State: closed - Opened by andrewejaffe about 8 years ago

#35 - Please see issue

Issue - State: closed - Opened by LiNk-NY over 8 years ago - 1 comment

#34 - Add a way to set advanced options

Issue - State: closed - Opened by lcolladotor over 9 years ago - 1 comment

#33 - How Fstats are generated in analyzeChr()

Issue - State: closed - Opened by MonicaVara over 9 years ago - 1 comment

#32 - Problem with fullCoverage function

Issue - State: closed - Opened by PietaSchofield almost 10 years ago - 3 comments

#31 - create a UCSC Track Hub from derfinder results

Issue - State: closed - Opened by andrewejaffe almost 10 years ago - 3 comments

#30 - Can latest `derfinder` reproduce original (2013) analysis?

Issue - State: closed - Opened by brianhigh almost 10 years ago - 1 comment

#29 - Speed up p-value calculation

Issue - State: closed - Opened by lcolladotor about 10 years ago - 4 comments

#28 - Width of devtools::session_info()

Issue - State: closed - Opened by lcolladotor over 10 years ago - 1 comment

#27 - Improve doc: filterData() after fullCoverage()

Issue - State: closed - Opened by lcolladotor over 10 years ago

#26 - filterData(cutoff = 0) fails in v0.0.69

Issue - State: closed - Opened by lcolladotor over 10 years ago

#25 - Missing derfinderPlot dependency

Issue - State: closed - Opened by lcolladotor over 10 years ago - 1 comment

#24 - Memory improvements to all parallel functions, new methods for F-stats calculation, recommended fullCoverage() and improved regionMatrix()

Pull Request - State: closed - Opened by lcolladotor over 10 years ago

#23 - Fully integrate GenomeInfoDb

Pull Request - State: closed - Opened by lcolladotor over 10 years ago

#22 - switch imports from GenomicRanges to GenomeInfoDb

Pull Request - State: closed - Opened by ttriche over 10 years ago - 5 comments

#21 - plotCluster() broken with ggbio 1.12.0

Issue - State: closed - Opened by lcolladotor almost 11 years ago

#20 - Adopt GenomeInfoDb

Issue - State: closed - Opened by lcolladotor almost 11 years ago
Labels: enhancement

#19 - Warnings when using coverageToExon()

Issue - State: closed - Opened by lcolladotor almost 11 years ago

#18 - add bigwig support?

Issue - State: closed - Opened by andrewejaffe almost 11 years ago - 1 comment

#17 - Rcpp drop

Pull Request - State: closed - Opened by lcolladotor almost 11 years ago

#16 - handle strand-specific alignments?

Issue - State: closed - Opened by alyssafrazee almost 11 years ago - 2 comments

#15 - getRegionCoverage() improved by ajaffe

Pull Request - State: closed - Opened by lcolladotor about 11 years ago

#14 - fix NAMESPACE to work with current bioc-devel pkgs

Pull Request - State: closed - Opened by ttriche about 11 years ago

#13 - extra installation steps required

Issue - State: closed - Opened by alyssafrazee about 11 years ago - 3 comments

#12 - Changed to requiring ggbio 1.8.8 because the current 1.10.10 has a minor...

Pull Request - State: closed - Opened by lcolladotor about 11 years ago - 1 comment

#11 - Minor message tweak

Pull Request - State: closed - Opened by lcolladotor about 11 years ago

#10 - error in calculatePvalues() when fstats.output appears to be a list

Issue - State: closed - Opened by lcolladotor about 11 years ago - 1 comment

#9 - error in calculatePvalues() when fstats.output is NULL

Issue - State: closed - Opened by lcolladotor about 11 years ago - 1 comment

#8 - Bumped to version 0.0.42. A series of performance enhancements were made to reduce the memory load (albeit a very minor time increase).

Pull Request - State: closed - Opened by lcolladotor about 11 years ago

#7 - plotCluster() example fails due to a ggbio::autoplot() error

Issue - State: closed - Opened by lcolladotor about 11 years ago - 1 comment

#6 - Develpment updates

Pull Request - State: closed - Opened by lcolladotor about 11 years ago

#5 - import bumphunter, foldChange => log2FoldChange

Pull Request - State: closed - Opened by mikelove about 11 years ago - 1 comment

GitHub / lcolladotor/derfinder issues and pull requests