-
Hi,
I am very interested to run jcast on few of my alternatively spliced transcripts, especially step 2 of the publication. I already have differentially used junctions, not from rMATS but from lea…
-
Hi,
I have a quick question. Can I use rMATs without having two conditions ? I have large panel of samples and I am interested to calculate PSIs across samples. This could be used for QTL analysis …
-
Dear All,
I have came across an Error: No significant clusters found when preparing the RData file to visualise the results, then I added the -f 0.15 flag to this step, I can visualise the data suc…
-
Hi,
First of all, thank you developing TWAS/FUSION. I am running it also for integrating GWAS and sQTL catalogues (including CMC splicing weights shared here: http://gusevlab.org/projects/fusion/#…
-
Hello,
Can someone please advise me how to prepare the VCF genotype file for the sQTL analysis?
Thanks in advance!
CLeib updated
5 years ago
-
I have already finished step 2: define intron clustering
and I want to get the PSI for per sample?
How can I don that?
Thanks advanced!
-
I have performed read mapping to the genome using STAR on with a 2-pass mapping to allow more splice junction reads to map to novel junctions. The parameters of the mapping were set as the following:
…
-
Hi Yang & David,
Briana & I are currently working on installing leafcutter. Unfortunately, your conda environment doesn't quite work---I didn't look into how you set it up, but we are having issue…
-
Hi there.
When I try running your script: **worked_out_example.sh** it gives me the following error:
**IOError: [Errno 2] No such file or directory: './clustering/gencode.v19.annotation.gtf.gz'**…
-
[Takata A et al. Nature Communications 2017. Genome-wide identification of splicing QTLs in the human brain and their enrichment among schizophrenia-associated loci](https://www.nature.com/articles/nc…
mfoos updated
6 years ago