-
(env_nf) [nf_core]$ nextflow run nf-core-circrna_dev/dev --input samplecircrna.csv --phenotype samplecircrna_condition.csv --outdir testout
N E X T F L O W ~ version 23.10.1
Launching `nf-core-ci…
-
here's a consistent output of a run:
[10:05:23] INFO Beginning search for viroid-like RNAs using 10 threads... easy_search.py:108 …
-
### Description of feature
Some candidates:
```[tasklist]
### Tasks
- [ ] https://github.com/nf-core/circrna/issues/139
- [ ] https://github.com/nf-core/circrna/issues/140
- [ ] https://gith…
-
Hi,
In the mapping with tophat-fusion step, I get the below error:
```
$ clear_quant -1 206_1.fq.gz -2 206_2.fq.gz -g /library/hg19.fa -i /library/hg19.fa -j /library/hg19.fa -G /library/hg19.g…
-
### Description of the bug
when executed the command:
`nextflow run nf-core/circrna -profile singularity --genome GRCh37 --igenomes_base $GENOME_BASE_DIR/ref/references --outdir $OUT_DIR --input…
-
### Description of the bug
recently I tried to help a user to run the nf-core/circRNA pipeline, but met tons of errors. And this is one of the latest after I downloaded the reference genome from aw…
-
### Description of the bug
Running nf-core/circrna with mapsplice, the docker showed DEPRECATION NOTICE when pulling mapsplice image: quay.io/biocontainers/mapsplice:2.2.1--py27h07887db_0
### Comman…
-
Testing with **runlocal** option with a script like this:
```bash
#/bin/bash
module purge
module load singularity
module load snakemake
export SINGULARITY_CACHEDIR="/data/CCBR_Pipeli…
-
Hello,
I am trying to use the annotation module on its own and getting back 2 errors that I am unable to troubleshoot on my own.
My command is as follows with STARsamples leading to a text file …
-
### Description of the bug
When running nf-core/circrna with --genome GRCh38, the error happended.
I checked the fasta.fa downloaded from AWS, the chromosome name is not what I expected. The top 10 …