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Hi there,
I'd like to try using CIRCexplorer2 to map circRNA reads in human genome. But since my project has over 1000 samples and we've already done the alignment work for mRNA by STAR aligner (whic…
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Hi Iam trying to run CIRIquant using the following command
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`CIRIquant -t 4 \
-1 read1.fastq \
-2 read2.fastq \
--config config_fil…
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Dear Marvin Jens,
Good day!
I am currently using the find_circ program developed by you for my work. I noticed there are additional arguments (--stranded & --strandpref). May I know the function…
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Dear egaffo:
I am sorry to bother you again.
I was running circompara2 on CentOS 7 using docker.
Here is my command : "docker run -u `id -u` --rm -it -v $(pwd):/data egaffo/circompara2:v0.1.2…
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Hi There,
I got following issues when I was trying to run the program:
```
fasta=/data1/workspace/DCI/Kirsch/Jianguo.Huang/circRNA/bwaindex/genome.fa
gtf=/data1/Annotation/iGenome/Mus_musculus/U…
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Some of the software dependencies in the Docker container are several versions behind a recent version.
Would it be possible to update the Dockerfile to work with these updated versions?
At least…
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My memory is 256GB ; however, I got the following message:
[Tue 2022-06-21 07:11:12] [INFO ] Input reads: SRR9856190_1_val_1.fq.gz,SRR9856190_2_val_2.fq.gz
[Tue 2022-06-21 07:11:12] [INFO ] Library …
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I am running through the example use case for annotation and none of the RNAs are getting annotated.
This is the command I am using: COMPSRA % java -jar COMPSRA.jar -ref hg38 -ann -ac 1,2,3,4,5,6 -…
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### Description of the bug
![image](https://github.com/user-attachments/assets/4d91aab8-4d4e-4bdc-acc6-0ea3805ff1ec)
Here are my annotation file and bed file. Are the formats correct?
```
Exec…
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Hi there,
I'd like to try using circompara2 to map circRNA reads in human genome for my RNAseq project. But since my project has over 1000 samples and we've already done the alignment work for mRNA b…