hansenlab bsseq issues - Githubissues

hansenlab / bsseq

Devel repository for bsseq

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Switch to the latest tatami interface for the M/Cov validity check.

#143 LTLA opened 23 hours ago
1
read.bismark doesn't finish with new R.

#142 desmodus1984 opened 2 months ago
1
Missing `read.modkit` function

#141 guoci closed 2 months ago
0
Bsmooth()

#140 romansch-hub closed 2 months ago
6
geneTrack in plotRegion

#139 RicardoMartins-Ferreira closed 3 months ago
7
Update strand information in read.modkit.R

#138 yixuan-chen-elisa closed 6 months ago
0
update functions on handling other modification bases

#137 yixuan-chen-elisa closed 7 months ago
0
No output from read.bismark with bismark cov.files

#136 desmodus1984 closed 7 months ago
14
Pca.plot.function

#135 kaanokay opened 11 months ago
0
update functions on handling other modification bases

#134 yixuan-chen-elisa closed 7 months ago
0
Upcoming change to DelayedArray::realize()

#133 hpages closed 9 months ago
2
update modbam2bed test data & NEWS.Rd

#132 yixuan-chen-elisa closed 1 year ago
0
Create a function read.modkit to read in methyl Bed files created by modkit to Bsseq object

#131 yixuan-chen-elisa closed 1 year ago
0
Create a read.modkit() function to read in methyl Bed files created from modkit to Bsseq objects

#130 yixuan-chen-elisa closed 1 year ago
0
exclude "Y" chromosome from bsseq object

#129 demis001 closed 1 year ago
3
Represent a CpG with single row during import

#128 demis001 closed 1 year ago
11
Fix read.modbam2bed

#127 yixuan-chen-elisa closed 1 year ago
0
read nanopore data into bsseq

#126 yixuan-chen-elisa closed 1 year ago
3
error message when I use the bsseq read.bismark command to read a genome wide cytosine report generated by bismark.

#125 Rfriedmancolumbia closed 1 year ago
26
Reading H5 files directly

#124 boooooogey opened 1 year ago
3
bsmooth() fails - Error in `h()`: ! error in evaluating the argument 'seed' in selecting a method for function 'DelayedArray': HDF5. File accessibility. Unable to open file.

#123 sahuno closed 1 year ago
3
combine(sample1.smooth, sample2.smooth) gives in unsmooth results?

#122 sahuno closed 1 year ago
4
Updating beachmat to tatami

#121 LTLA opened 1 year ago
1
BSmooth.tstat issue

#120 sara-sajjadi closed 11 months ago
11
combineList: BACKEND Argument not working as intended

#119 Apompetti-Cori opened 1 year ago
1
BSmooth with HDF5 realization backend error: Stop worker failed with the error: wrong args for environment subassignment

#118 Apompetti-Cori opened 1 year ago
5
read.bismark: option to change tmpdir in fread?

#117 jarbet closed 1 year ago
4
Error BSmooth

#116 AndriesDeKoker closed 1 year ago
3
bsseq incompatible with tictoc library

#115 JeffreyMaurer closed 2 years ago
1
Normalization of the WGBS smooth data

#114 priyatamapandey opened 2 years ago
5
Don't checkDimnames when making SummarizedExperiment

#113 jamespeapen opened 2 years ago
3
Is it possible to append metadata to the GRanges within BSseq objects?

#112 lukesarre closed 2 years ago
3
Error: C stack usage 10847362 is too close to the limit

#111 Carota-1 opened 2 years ago
3
BSmooth - Error in env[[as.character(i)]] <- value : wrong args for environment subassignment

#110 ciganche opened 2 years ago
2
read.bismark() too slow - input format issue?

#109 shraddhapai closed 2 years ago
8
BSmooth.tstat error, Error in compute.correction

#108 yang-mj opened 2 years ago
5
BSmooth error

#107 kir1to455 closed 2 years ago
2
Error in BSmooth.tstat - stopifnot(length(group1) + length(group2) >= 3)

#106 wangjingwan opened 2 years ago
3
Error in FUN(X[[i]], ...) : invalid 'type' (character) of argument

#105 wb-yun closed 3 years ago
0
BSmooth error

#104 priyatamapandey opened 3 years ago
24
Error in dmrFinder: 'stat' needs to be a column of 'bstat@stats'

#103 RRebo opened 3 years ago
1
remove common unmethylated CpGs

#102 RRebo closed 3 years ago
6
error with the BSmooth

#101 HYan-lei closed 3 years ago
16
bsseq object and h5 file

#100 eddiehli closed 3 years ago
2
getCoverage perBase perRegionAverage different outcomes

#99 jkrainer closed 4 years ago
8
HDF5-backed objects saved with a "prefix" fail to smooth

#98 Nick-Eagles opened 4 years ago
2
multiple hypothesis correction

#97 ravitharakan closed 4 years ago
8
getMeth relation to CpGs

#96 ravitharakan opened 4 years ago
1
BSseq Constructor fails if rmZeroCov = TRUE

#95 mdperry opened 4 years ago
1
Error in combining multiple bsseq objects

#94 katiearacena opened 4 years ago
5