bug1303

AE/BE policy

10

What is your policy on American/British English? I noticed e.g.: http://edamontology.org/operation_0337 has Preferred Name "Visualisation" and as Synonym "Visualization" http://edamontology.org/topic_2275 has Preferred Name "Molecular modelling" and as Synonym "Molecular modeling"...

Stuck at "Authorize Twitter Account" after fresh install

3

I have been happily using this app for some while. Now needed to re-install it (fresh install via google play store) and get stuck with a black screen, respectively one...

gseaplot2 : error in red-to-blue gradient

1

I was wondering what the red-to-blue gradient should represent (geom_rect in subplot 2). In broadinstitute's GSEA results, the switch from red to blue happens on the zero-cross of the ranked...

Missing G2 phase in LengESCData

1

Column metadata for this dataset supposedly contains experimentally determined cell cycle phase for each cell, however: ``` sce.ref

Clarify input format (for Bismark output)

1

You write in the README.md that you support the following formats: > Input Type 5 Bismark coverage2cytosine format: > > //Bismark coverage2cytosine format Example: chr1 762 763 + 17 64...

### Description of the bug With a sample sheet like this, with a single-end sample being re-sequenced: ``` sample,fastq_1,fastq_2 SAMPLE1,seqrun1_sample1_R1.trimmed.fq.gz, SAMPLE1,seqrun2_sample1_R1.trimmed.fq.gz, ``` `-r 2.1.1` creates `pipeline_info/samplesheet.valid.csv` with: ``` sample,single_end,fastq_1,fastq_2 SAMPLE1_T1,True,seqrun1_sample1_R1.trimmed.fq.gz,...

Consistency in format subontology

1

Some currently existing entries: http://edamontology.org/format_3003 has Preferred Name "BED", no synonyms. http://edamontology.org/format_1961 has Preferred Name "Stockholm format", no synonyms. http://edamontology.org/format_1476 has Preferred Name "PDB" and hasExactSynonym "PDB format". http://edamontology.org/format_1936 has...