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neurogenomics
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EpiCompare
Comparison, benchmarking & QC of epigenetic datasets
https://doi.org/doi:10.18129/B9.bioc.EpiCompare
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EpiCompare failing on Bioc Windows
#153
bschilder
opened
1 year ago
15
EpiCompare Function Error - Unable to find an inherited method for function 'mcols'
#152
ParisaRahbar
opened
1 year ago
1
`WARNING: The following files are over 5MB in size: 'inst/doc/example_report.html'`
#151
bschilder
closed
1 year ago
3
push to Bioconductor RELEASE_3_17
#150
serachoi1230
opened
1 year ago
2
Update NEWS file
#149
bschilder
opened
1 year ago
0
Issues with download button
#148
serachoi1230
opened
1 year ago
12
GHA Linux: `Error in grid.newpage(): could not open file `
#147
bschilder
closed
1 year ago
6
GHA Windows: `Parser error: while parsing a block mapping at line 1, column 1 did not find expected key at line 1, column 45`
#146
bschilder
closed
5 months ago
6
Supply message indicating which feature were NOT run
#145
bschilder
closed
1 year ago
1
Add debug mode
#144
bschilder
closed
1 year ago
1
Reduce dependencies
#143
bschilder
opened
1 year ago
0
`downloadthis:::download_this.ggplot(...)`: `Error: ! Unknown graphics device "rds"`
#142
bschilder
closed
1 year ago
2
Add citation information
#141
bschilder
closed
1 year ago
0
Make custom EpiCompare Rmarkdown theme
#140
bschilder
closed
1 year ago
0
Report `EpiCompare` command
#139
bschilder
closed
1 year ago
0
`Error: processing vignette 'EpiCompare.Rmd' failed with diagnostics: [ENOENT] Failed to remove `
#138
bschilder
closed
1 year ago
8
Could you add T2Tv2.0 new assembly (so called Hs1) to hg19 and hg38? Thanks
#137
josegarciamanteiga
opened
1 year ago
3
Add note about documentation/Bioc version differences
#136
bschilder
closed
1 year ago
1
Save "uplifted" peak/bed files
#135
bschilder
closed
1 year ago
2
Options to display plots side-by-side
#134
bschilder
closed
1 year ago
1
Add more informative Suggest dep messages
#133
bschilder
closed
1 year ago
1
Label TSS plots
#132
bschilder
closed
1 year ago
0
User-specified TSS-distance
#131
bschilder
closed
1 year ago
1
list all blacklist options
#130
bschilder
closed
1 year ago
0
Add mouse blacklists
#129
bschilder
closed
1 year ago
0
Percentage overlap: bar plot
#128
bschilder
closed
1 year ago
3
`EpiCompare::EpiCompare`: Consider add `run_all` arg
#127
bschilder
closed
1 year ago
2
percentage overlap plots: improvements
#126
bschilder
closed
1 year ago
1
`general metrics: peak reports`: auto-rescale
#125
bschilder
closed
1 year ago
0
Add chromatin mark data to example report
#124
bschilder
closed
1 year ago
3
Add rworkflows
#123
bschilder
closed
1 year ago
0
Pull Bioc `RELEASE_3_16`
#122
bschilder
closed
1 year ago
12
Bioconductor checks failing on Linux:
#121
bschilder
closed
1 year ago
1
Save precision-recall and correlation results
#120
bschilder
closed
1 year ago
1
New options for ChromHMM annotations or an option for the user to choose their own annotation
#119
teemuronkko
opened
1 year ago
1
Get Picard summary metrics from <batch>/02_alignment/bowtie2/target/sample_name.stats file
#118
teemuronkko
closed
1 year ago
5
GHA Windows: ` there is no package called 'TxDb.Hsapiens.UCSC.hg19.knownGene'`
#117
bschilder
closed
1 year ago
1
Functional Enrichment Analysis: generate separate plots for each peak set
#116
bschilder
opened
1 year ago
0
Cannot push to Bioconductor
#115
serachoi1230
closed
1 year ago
3
Add consensus motif detection to EpiCompare so we can better analyse transcription factor data
#114
NathanSkene
opened
1 year ago
0
`EpiCompare::EpiCompare`: Automatically choose blacklist
#113
bschilder
closed
1 year ago
1
EpiCompare report replacing Get started vignette
#112
bschilder
closed
1 year ago
1
unused argument
#111
Kebabai9
closed
1 year ago
1
Update CITATION file
#110
bschilder
closed
1 year ago
0
Submit `EpiCompare` manuscript to peer-reviewed journal
#109
bschilder
closed
1 year ago
0
Submit`EpiCompare` manuscript to bioRxiv
#108
bschilder
closed
1 year ago
0
Update README
#107
bschilder
closed
1 year ago
0
Reduce size of *EpiCompare_example.html*
#106
bschilder
closed
1 year ago
1
Unable to find chain files on `AnnotationHub`
#105
bschilder
closed
1 year ago
1
Plot peaks across chromosomes
#104
bschilder
opened
1 year ago
0
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