Ecosyste.ms: Issues

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GitHub / cmap/cmapr issues and pull requests

#72 - could not find function parse gctx

Issue - State: open - Opened by wangyanmin123 11 months ago - 1 comment

#71 - Level 4 replicates do not match a specific Level 5 signature

Issue - State: closed - Opened by afaissa over 1 year ago - 4 comments

#70 - Warning when loading package

Issue - State: closed - Opened by nicolerg over 1 year ago - 3 comments

#69 - parse_gctx throwing error which I am not able to understand

Issue - State: open - Opened by jjyotikataria almost 2 years ago - 3 comments

#68 - Difference between the example object and the one parsed from file

Issue - State: closed - Opened by afaissa over 3 years ago - 4 comments

#67 - custom reference space for `robust_zscore`

Issue - State: open - Opened by tnat1031 over 3 years ago
Labels: enhancement

#66 - Questions about connectivity map

Issue - State: closed - Opened by lovenicole over 3 years ago - 3 comments

#65 - parse_gctx Error: segfault from C stack overflow

Issue - State: open - Opened by FogatoHub over 3 years ago - 13 comments

#64 - Release 3 12

Pull Request - State: closed - Opened by tnat1031 almost 4 years ago

#63 - Prada dependency error

Issue - State: closed - Opened by marcstein almost 4 years ago - 9 comments

#62 - Bioconductor Documentation Issue

Issue - State: closed - Opened by cannin about 4 years ago

#61 - Fix tutorial's installation instructions

Pull Request - State: closed - Opened by nuno-agostinho about 4 years ago - 1 comment

#60 - page is missed

Issue - State: closed - Opened by FADHLyemen about 4 years ago - 1 comment

#59 - read id column as character

Issue - State: open - Opened by tnat1031 about 4 years ago
Labels: enhancement

#58 - Some questions about function parse_gctx

Issue - State: closed - Opened by XiaohanChen97 over 4 years ago - 9 comments

#57 - Annotating level 3 or level 4 data

Issue - State: closed - Opened by Joker-Jerome over 4 years ago - 1 comment

#56 - L1000 Inference function

Issue - State: closed - Opened by XiaohanChen97 over 4 years ago - 2 comments

#54 - Update utils.R

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#53 - Connectivity Score implementation

Issue - State: closed - Opened by enricoferrero over 4 years ago - 1 comment

#52 - Installation Issue

Issue - State: closed - Opened by monabiyan over 4 years ago - 2 comments

#51 - Installing cmapR requires R >= 4.0

Issue - State: closed - Opened by enricoferrero over 4 years ago - 6 comments

#50 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#50 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#49 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#49 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#48 - updating vignette to use BiocStyle

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#48 - updating vignette to use BiocStyle

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#47 - refactoring and adding GCT constructor method

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#47 - refactoring and adding GCT constructor method

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#46 - adding GCT accessor methods

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#46 - adding GCT accessor methods

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#45 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#45 - Bioc

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#44 - Installation fails

Issue - State: closed - Opened by erikfel97 over 4 years ago - 12 comments

#44 - Installation fails

Issue - State: closed - Opened by erikfel97 over 4 years ago - 12 comments

#43 - fixing bug in write_gct and updating tests

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#42 - subset.gct is not available

Issue - State: closed - Opened by dhwani2410 over 4 years ago

#41 - exported GCT does not contain all metadata tracks

Issue - State: closed - Opened by mhk658 over 4 years ago - 6 comments

#40 - exporting deprecated functions

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#39 - adding aliases for deprecated functions

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#38 - moving docker and nginx files out of root

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#38 - moving docker and nginx files out of root

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#37 - Minor fix on line 30

Pull Request - State: closed - Opened by kant over 4 years ago

#37 - Minor fix on line 30

Pull Request - State: closed - Opened by kant over 4 years ago

#36 - Syntax issue on paragraph 05

Pull Request - State: closed - Opened by kant over 4 years ago

#36 - Syntax issue on paragraph 05

Pull Request - State: closed - Opened by kant over 4 years ago

#35 - adding support for SummarizedExperiment

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#35 - adding support for SummarizedExperiment

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#34 - updates for Bioconductor

Pull Request - State: closed - Opened by tnat1031 over 4 years ago

#33 - rdesc and cdesc need to be ordered properly when creating new GCT

Issue - State: open - Opened by tnat1031 almost 5 years ago
Labels: bug

#32 - merge.gct should NA pad

Issue - State: closed - Opened by tnat1031 almost 5 years ago - 1 comment
Labels: enhancement

#31 - Readthedocs page gives a 404

Issue - State: closed - Opened by bsiranosian about 5 years ago - 3 comments

#30 - melt.gct returns empty data.frame when rdesc and cdesc emtpy

Issue - State: closed - Opened by tnat1031 about 5 years ago
Labels: bug

#29 - Create install_cmapR.R

Pull Request - State: closed - Opened by jananiravi over 5 years ago

#27 - merge.gct error

Issue - State: open - Opened by oena over 5 years ago

#26 - parse.gctx error

Issue - State: closed - Opened by ibilgen over 5 years ago - 5 comments

#25 - Update gctx

Pull Request - State: closed - Opened by tnat1031 over 5 years ago

#24 - cmapR in CRAN or Bioconductor

Issue - State: closed - Opened by nuno-agostinho almost 6 years ago - 7 comments

#23 - parse.gctx() dimnames error

Issue - State: closed - Opened by rpeys almost 6 years ago - 3 comments

#22 - parse.gctx fails to work unless user explicitly import rhdf5

Issue - State: closed - Opened by nzllim about 6 years ago - 4 comments

#21 - Error reading GCT downloaded from CLUE

Issue - State: closed - Opened by concatenize about 6 years ago - 2 comments

#20 - Documentation doesn't include a download link

Issue - State: closed - Opened by datakid about 6 years ago - 2 comments

#19 - Import instead of depend

Pull Request - State: closed - Opened by oganm about 6 years ago

#18 - `write.gctx` for incremental output

Issue - State: closed - Opened by luyoutao over 6 years ago - 1 comment

#17 - new("GCT", ...) method no longer works

Issue - State: closed - Opened by luyoutao over 6 years ago - 1 comment

#16 - cannot allocate vector of size 121.2 Gb (LINCS: level 3)

Issue - State: closed - Opened by EliHei over 6 years ago - 9 comments

#15 - MODZ calculation in R?

Issue - State: closed - Opened by ge2sasag over 6 years ago - 5 comments

#14 - Dealing with changes in rhdf5

Pull Request - State: closed - Opened by grimbough over 6 years ago - 1 comment

#13 - tutorial error with R-devel ... second read from gctx fails

Issue - State: closed - Opened by vjcitn over 6 years ago - 4 comments

#12 - how to retrieve the connectivity score (tau) for any given combination?

Issue - State: closed - Opened by antonkratz over 6 years ago - 3 comments

#11 - don't require 'id' field in rdesc/cdesc for subset.gct

Issue - State: open - Opened by tnat1031 over 6 years ago - 2 comments
Labels: enhancement

#10 - tutorial section: Parsing a subset of a GCTX file

Issue - State: closed - Opened by antonkratz over 6 years ago - 1 comment

#9 - add test coverage for GCT class

Issue - State: closed - Opened by tnat1031 almost 7 years ago
Labels: enhancement

#9 - add test coverage for GCT class

Issue - State: closed - Opened by tnat1031 almost 7 years ago
Labels: enhancement

#8 - R CMD check fails (issue with 'testthat')

Issue - State: closed - Opened by miguelroboso almost 7 years ago - 1 comment

#7 - Problem regarding get a column metadata

Issue - State: closed - Opened by git-jrwang about 7 years ago - 4 comments

#6 - suggestion on simple installation

Issue - State: closed - Opened by hakyim about 7 years ago - 9 comments

#5 - enable clean update of GCT ids

Issue - State: open - Opened by tnat1031 about 7 years ago
Labels: enhancement

#4 - enable write.gctx append

Issue - State: closed - Opened by tnat1031 about 7 years ago
Labels: enhancement

#3 - Documentation

Pull Request - State: closed - Opened by tnat1031 over 7 years ago

#2 - added sphinx documentation for repo

Pull Request - State: closed - Opened by oena over 7 years ago - 3 comments

#1 - add test for subset.gct

Issue - State: closed - Opened by tnat1031 over 7 years ago
Labels: enhancement