HenrikBengtsson aroma.affymetrix issues

HenrikBengtsson / aroma.affymetrix

🔬 R package: Analysis of Large Affymetrix Microarray Data Sets

https://cran.r-project.org/package=aroma.affymetrix

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MOUSEDIVm520650 CDF file

#43 DesmondSmith opened 11 months ago
0
question about genome information file

#42 zhangjsyeah opened 2 years ago
4
CLEANUP: Stop testing against deprecated future.BatchJobs

#41 HenrikBengtsson closed 3 years ago
0
doCRMAv2() error:Do not know how to unwrap object: AromaUnitTotalCnBinarySet

#40 MimoriK closed 3 years ago
3
ROBUSTNESS: Add explicit 'stringsAsFactors' arguments [cbind, rbind]

#39 HenrikBengtsson opened 4 years ago
1
ROBUSTNESS: Add explicit 'stringsAsFactors' arguments [data.frame]

#38 HenrikBengtsson opened 4 years ago
0
ROBUSTNESS: Add explicit 'stringsAsFactors' arguments [read.table]

#37 HenrikBengtsson closed 3 years ago
0
CLEANUP: Import throw() from R.oo (>= 1.23.0)

#36 HenrikBengtsson closed 4 years ago
0
CRAN: Errors in Windows due to failed file linking

#35 HenrikBengtsson closed 5 years ago
2
Some Question About Installing this R package

#34 liuzhe93 opened 5 years ago
0
R-devel / CRAN errors

#33 HenrikBengtsson closed 6 years ago
1
Dropped semicolon at end of line

#32 gara-z closed 6 years ago
1
BUG: R CMD check "Note: break used in wrong context: no loop is visible"

#31 HenrikBengtsson closed 6 years ago
1
Updating from 3.0.0 to 3.1.0 failed

#30 ThomasGro closed 6 years ago
3
Most Affymetrix URLs are broken since now moved to https://www.thermofisher.com/

#29 HenrikBengtsson opened 7 years ago
2
Error: '%<=%' is defunct. Use '%<-%' instead.

#28 louievdl closed 7 years ago
10
Tests: Annotation file no longer available from Affymetrix -> upgrade to newer version

#27 HenrikBengtsson closed 7 years ago
0
affyio::read.celfile.header() requires methods package to be attached?

#26 HenrikBengtsson closed 7 years ago
1
Reformat NEWS

#25 HenrikBengtsson closed 7 years ago
1
CLEANUP: Drop reporting on RAM size for File/Set objects

#24 HenrikBengtsson closed 7 years ago
1
ROBUSTNESS: Make sure search file reg exp patterns have trailing $

#23 HenrikBengtsson closed 7 years ago
1
TESTS: testScripts/futures/* to utilize future.BatchJobs

#22 HenrikBengtsson closed 8 years ago
0
README should give proper installation instructions

#21 HenrikBengtsson closed 8 years ago
1
Command line: Turn doNnn() functions into CmdArgsFunction:s

#20 HenrikBengtsson closed 8 years ago
0
PARALLEL: PLM fit() and processing chunks in parallel

#19 HenrikBengtsson opened 8 years ago
0
Use IEC units KiB, MiB, GiB, ... for file sizes

#18 HenrikBengtsson closed 7 years ago
2
Add checksum file generation for FIRMAscores.CEL files

#17 HenrikBengtsson closed 8 years ago
0
Generate checksum files for all data files part of the package

#16 HenrikBengtsson closed 8 years ago
0
TESTS: "system" on GenomeWideSNP_6 takes ~3.5 hours to complete

#15 HenrikBengtsson opened 8 years ago
2
TESTS: "addons" tests for GSE12702 runs 40 samples and takes ~3 hours - can we use fewer to speed it up?

#14 HenrikBengtsson closed 8 years ago
1
REPRODUCIBILITY: Add argument `seed` to GcRmaBackgroundCorrection

#13 HenrikBengtsson closed 8 years ago
1
FUTURE: Use do.call(fcn, ...) - not do.call("fcn", ...)

#12 HenrikBengtsson closed 8 years ago
0
Subsetting by name on empty AffymetrixCelSet tries to read non-existing CEL file

#11 HenrikBengtsson closed 8 years ago
3
ROBUSTNESS: process() for MatNormalization does not create CEL files atomically

#10 HenrikBengtsson closed 8 years ago
0
DUPLICATED issue

#9 HenrikBengtsson closed 8 years ago
0
REPRODUCIBILITY: Created CEL files carry creation timestamp in header => non-unique CEL files

#8 HenrikBengtsson opened 8 years ago
2
CLEANUP: Use anyNA() - drop anyMissing()

#7 HenrikBengtsson closed 8 years ago
0
METACRAN: Keep README.md so it appears on METACRAN

#6 HenrikBengtsson closed 7 years ago
0
CLEANUP: Make deprecated functions/methods defunct

#5 HenrikBengtsson closed 8 years ago
0
CLEANUP: Drop defunct functions/methods

#4 HenrikBengtsson closed 8 years ago
0
doCRMAv2() and similar may return a non-bijective set (even when all is output exists)

#3 HenrikBengtsson closed 8 years ago
1
Declare all S3 methods in NAMESPACE

#2 HenrikBengtsson closed 9 years ago
0
Update package title to use Title Case

#1 HenrikBengtsson closed 9 years ago
1