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It seems the Chimeric.out.junction file from STAR chimeric alignment would output the internal junction information. We could use that information to analysis the internal splicing pattern of circRNAs…
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I have been trying to follow the DCC & FUCHs pipeline but am encountering errors with the FUCH stage.
I aligned my reads as described in the DCC https://github.com/dieterich-lab/DCC and circtools …
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```
-> % bash ./Step2.sh
Filtering out chimeric reads that appear circular
Filtering circular reads based on assigned thresholds of 5 reads in 10 individuals
awk: cmd. line:1: { if (5 >= var) prin…
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Hi,
I used STAR to align my paired-end reads and followed the pipeline from 'Align-Parse-Annotate'. I got a list of predicted circRNAs that perfectly match with annotated genes. The results looked …
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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…