-
### Description of the bug
My results are empty! But I find that it's available when the process is running.
I'm trying to run nf-core/rnaseq. There is nothing about error when it's running, how…
-
Hi,
I'm running a job on to mammalian genomes.
nextflow run ../bosTauTomBal/nf-LO --source ../bosTau6.fa --target /project/mchaisso_100/projects/Whales/mPhosSin1.pri/assembly.orig.fasta --max-c…
-
### Description of the bug
**Background**
I am using nfcore/rnaseq pipeline to process batches of paired-end reverse stranded rnaseq data from a number of cell/tissue types, mainly muscle and fibrob…
-
Hi,
I'm running SQANTI3 on a mouse transcript PacBio dataset and I keep running into the following issue:
[+] Loading minimap2, version 2.24...
R scripting front-end version 4.1.3 (2022-03-10)…
-
Hi
Panaroo is a great extension to the suite of pangenome tools. I like the idea of outputs that are compatible with other tools eg Roary.
I have a problem with panaroo. Specifically, prank error…
-
Dear all,
I have samtools and bowtie2 up-dated and installed the R packages required (tidyverse / plotly) as well.
I don't know from where the header error could came from I have never encountered…
-
When the aligner is set to `bwa`, in two separate data sets we are seeing some libs with very different "hit profiles" or "mapping signatures" between R1 and R2 files. For example, R1 may have 40% of…
-
I am running the RNA-Seq pipeline on bcbio 1.2.4. The following is a snippet of my config file.
```yaml
- algorithm:
aligner: hisat2
quality_format: Standard
analysis: RNA-seq
de…
-
Hi,
I'm using Velocyto on data generated from 10x genomics cellranger pipeline, and project velocity onto embeddings produced from Seurat and scanpy. I found that some of my marker genes are barely…
-
Hi,
I encountered a similar issue to https://github.com/bcbio/bcbio-nextgen/issues/3506
`peddy` fails when running `tools_on: gvcf`. I repeated the run on the same data without `tools_on: gvcf` an…