-
Hello,
Thank you for all the great tools coming from this team.
I gave Braker3 a shot, but am running into an error at the moment. I will report below how I installed Braker3, and how I used it…
-
The eQTL Catalogue makes available through FTP their credible sets extracted after fine mapping summary statistics with SuSIE.
So far, we have generated credible sets from GTEx summary statistics. Th…
-
How do you eventually get to differential isoform/transcript expression in the Hisat -> FeatureCount workflow?
sr320 updated
6 months ago
-
Hi, developers,
Thanks a lot for providing such a powerful tool for us to analyze ONT data. I installed isoquant with version 3.4.2 by means of "conda create -c conda-forge -c bioconda -n isoquant …
-
Hello,
I am not sure I understand the meaning of the -c flag "-c Smaller size allowed for an intron created for genes. Default: 16. We recommend to use the reads length". Why do you recommend the …
-
Hi @andrewprzh , I am going through the read assignments file and looks like there are instances with multiple entries of same read ID, each entry has a different isoform listed althought it's the sam…
-
Thank you for creating this valuable tool. We've found it to be the best for analyzing our data compared to other tools, but we've noticed a discrepancy in genotyping the KIR2DL5A/B genes. While other…
-
* spladder version: 2.2.23
* Python version: Python 3.6.8
* Operating System: Ubuntu 18.04.3 LTS
### Description
Dear Andre,
Whilst following the step-wise procedure for use on large cohort…
-
I am trying to process seq-scope data and am getting an error message in create_spatial_barcode_file:
```
rule create_spatial_barcode_file:
input: /gpfs/bwfor/work/ws/hd_fz305-seqscope/data/c…
-
Hi all,
I am running Kallisto on bulk RNAseq data from ribo-depleted libraries. This means that my reads will include immature RNA with intronic reads. As such, I have assumed that the index shoul…