Alex M. Ascensión

Issue in NFCORE_RNASEQ:RNASEQ:QUANTIFY_PSEUDO_ALIGNMENT:TX2GENE (genome.filtered.gtf)

2

### Description of the bug I'm running nf-core/rnaseq with the following command: ``` nextflow run nf-core/rnaseq -r 3.14.0 -profile docker --max_cpus 9 --max_memory 24.GB --max_time 500.h --pseudo_aligner salmon --outdir results/test_mouse/RNASEQ_PSEUDOALIGNER...

Loading Axion Biosystems AXIS data

6

Hi! Does spikeinterface support loading .raw or .spk formats of AXIS data? I don't see it in the docs, so I guess this format is not implemented. Thanks!

--bwa_index: string [database/indexes/GRCm38/BWA/genome.bwt] does not match pattern ^\S+\.\{amb,ann,bwt,pac,sa\}$ (database/indexes/GRCm38/BWA/genome.bwt)

4

### Description of the bug Hi! I'm using nf-core/circdna with the following configuration: ``` nextflow run nf-core/circdna \ -r 1.0.4 \ -profile docker \ -resume \ --max_cpus 9 \ --max_memory...

Fail to load AmpliconArquitech files

6

### Description of the bug Hi! I'm running the pipeline with the following pipeline: ``` nextflow run nf-core/circdna \ -r 1.0.4 \ -profile docker \ -resume \ --max_cpus 9 \...

Hi! I'm trying to download the FASTQ files from the snRNAseq proeject from Globus (https://app.globus.org/file-manager?origin_id=6f9322c4-5eaf-11ed-b0b5-bfe7e7197080&origin_path=%2F&two_pane=false). When I get to download the files from either `FASTQ` or `FASTQ_renamed` folders, I get...