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creating circRNA fasta and gtf for re-alignment and quantification
[W::fai_fetch] Reference 0:89-177 not found in FASTA file, returning empty sequence
Failed to fetch sequence in 0:89-177
[W::fai_f…
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the term for this is
GO:0015680 intracellular copper ion transport
intracellular copper delivery | exact
but I don't think this is transport, it's just insertion?
see
Cerqua C, Mor…
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[root@VM_32_17_centos starchip]# ./Step1.sh
Filtering out chimeric reads that appear circular
Filtering circular reads based on assigned thresholds of 5 reads in 1 individuals
Argument "8680r7" is…
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I would like to see "sequence-specific regulation of translation”, “sequence-specific positive regulation of…” and "sequence-specific negative regulation of…” added to the GO ontology under the parent…
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I have noticed some splice junction output that does not make any sense (i.e. no supporting reads)
in /prj/circRNA_ENCODE3/workflow/DCC_CD_07_2017/CircSkipJunctions
I found
`1 26255171 …
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DCC version 0.4.4
GENCODE v27 annotation for GRCh38
STAR 2.5.3a indexed GRCh38 with GENCODE v27 annotation
I run DCC after mapping the stranded paired-end ribodepleted RNAseq data in the three p…
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Hello,
I have a simle question. When trying to create "known gene families and known/common false-positive pairs", I cannot find the "Associated Gene Name" under the GENE dropdown.
![default](http…
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How are single exon genes / circRNAs treated when computing the enrichment in contrast to the linear genes?
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In addition to the overview plots, a "Top 10" plots with one plot per circRNA/RBP would be helpful.
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DCC crashes when using the following command line:
```
DCC @samplesheet -mt1 @mate1 -mt2 @mate2 -T 8 -D -N -an
/data/yaoyh/circRNA/GTF_file/gencode.v26.annotation.gtf -Pi -F -fg -G -A
/data/yaoyh/…