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Hello everyone. First of all, I'd like to congratulate you on this incredible tool.
In my current project, I need to create cell x transcript matrices for my single nucleus human sample data genera…
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Hi everyone,
Can I use this workflow for tumor only variant calling to detect both Somatic and Germline variants? Or should I first run my data with Mutect in tumor only mode and then use varlocira…
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Hi everyone,
I am curious to use your tool on our in-house iCLIP data set.
After a very convenient installation (conda installation, peakhood v0.3), I executed the 'peakhood extract' and ran i…
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Hi,
I was looking at some sequences like-
https://www.ebi.ac.uk/ena/browser/view/SRR13756225?show=reads
Where there is one sequencing file from Illumina MiSeq, and in the published paper it men…
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Hi,
Thanks for developing PAQR_KAPAC. I am facing a problem when running step2 of PAQR with the source code (error shown in the attached figure).
Does anyone have idea from which the error comes…
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I'm exploring working with PhyloWGS, and can't quite understand what's going on with the CNV inputs. The docs from the front page say:
cnv_data.txt: Note that if you are running without any CNVs, …
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Hi,
I really love the `LRSinkhorn`. Not just for its speed (but yeah, it is really, fast), I think this method is natural and may have broader implications in practical problems as well.
The cu…
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- [x] **Length standardization of WRSD (relevant for Figure 2, Tables 2-4)**
Rather than a length normalization (i.e., values between 0 and 1), we should try to achieve a length standardization in wh…
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Hello,
I'm writing to you because I'm having a few problems with Aldy. First, I ran it through all the possible genes. I've had difficulties with the CYP2A6 and CYP2D6 genes, but I'm going to focus…