ChrAccR

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Hi Fabian, I follow the vignette and run: `run_atac("ChrAccR_analysis", "bamFilenameFull", sampleAnnot, genome="hg38", sampleIdCol="sampleId", regionSets=regionSetList)` After a long run time, I got this: Loading required namespace: DESeq2 converting counts to integer...

Chrisdoan9

Hi Fabian, I have an error message when run: `run_atac("ChrAccR_analysis", "bamFilenameFull", sampleAnnot, genome="hg38", sampleIdCol="sampleId", regionSets=regionSetList)` Error in (function (cond) : error in evaluating the argument 'x' in selecting a method...

Chrisdoan9

Any suggestions on what is a causing this error. I loaded the data using loadDsAcc within a prior analysis/data/ ds_ATAC_filtered and or Processed createReport_differential(dsa, reportDir) Last executed at 2023-05-24 14:18:51...

arugula2388

While trying the vanilla analysis from the vignette after the following call: ```r run_atac("ChrAccR_analysis", "bamFilenameFull", sampleAnnot, genome="hg38", sampleIdCol="sampleId", regionSets=regionSetList) ``` I get the error: ``` Error: 'getRealizationBackend' is defunct. Use...

maxim-h

ATAC QC Filtering Tiling Regions

2

Hello, We did a very shallow sequencing run of ~8 million reads (before mapping etc.) spread over 20 bulk atac samples from 5 different cell types with 3 "treatments" each...

astarr97