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Greetings,
I cloned the latest version of circminer, completed the installation (make) and builded index for hg38 reference genome.
I keep getting the same error after the circRNA detection is comp…
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I analyzed 12 sets of paired end reads with CIRI-full pipeline and tried to run CIRI-vis on each of them. 11 samples worked fine but for the 12th sample, CIRI-vis generates the circRNA plots and list …
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I am getting this error
```
/data/Ziegelbauer_lab/tools/NCLscan-1.7.0/NCLscan.py -c /vf/users/Ziegelbauer_lab/circRNADetection/circRNA_daq_v0.8.x/samples_3_032223/nclscan.config -o test -pj iSLK-BAC…
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Hi there,
I'd like to try using CIRI2 or CIRIquant 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 …
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I run the software with the following parameters:
`clear_quant -1 ~/biodata/hcc-ribo/rmrRNA/LC501_tumor_totalRNA.derrRNA.fq.gz -g ~/biodata/index/GRCh38/GRCh38.primary_assembly.genome.fa -i ~/biodata…
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When I ran CIRCxplorer2, it took me an over night to align the paired sequencing data using tophat. And then it took nearly 10 hours to go to the assembly step, and it hasn't finished running yet
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Hello.. I am currently having an issue with the annotation part. I am using Linux to perform CIRCexplorer2 analysis.
After aligning everything with STAR as described by you,
for instance:
`S…
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Hi,
I was trying to reproduce the results from your paper and was a bit confused with the number of circRNAs contained in the hela_hg19_circRNA.txt. Apparently, there are 15,195 entries in this tab…
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Modifying `seqlevels` [like here](https://github.com/BIMSBbioinfo/ciRcus/blob/bf41f5bd3c3a91ad0cdb2d50e3c9bdf7ab3685f0/R/annotate.R#L17-L18) is not robust (in *C. elegans* for example UCSC's `"chrM"` …