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I am currently working on a tumor bulk RNA-seq data set in order to identify somatic mutations. I have the BAM file for the tumor data set but I do not have the BAM file for a normal sample. Is there …
ghost updated
2 years ago
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Dear developer/s,
I wonder how much memory does Integrate fusion takes?
Does it load all the bam (RNA+tumor DNA+normal DNA) at a time in the memory for fusion detection? (NB: my filesize are qui…
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How do I get the dataset used in this project?
TW1L1 updated
3 months ago
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Hello! I am trying to run svaba for targeted SV detection.
The command works with Svaba v1.1.0 but with v1.2.0 it throws the following error:
```
"Found chromosome in region file /rtsess01/juno/…
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I have three questions for using IM-fusion:
1. Your article identify TE insertions from RNA-Seq based on Sleeping Beauty (SB) transposon model. But, I have several RNA-Seq data sets from Normal vs …
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Hi,
Thank you for developing this tool which is quite easy to use!
I am wondering if SpecHLA could also be used to detect somatic HLA mutations since we have paired tumor and normal WES or RNA…
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hello , sorry to disturb you.
I saw the paper 'Inference of transcription factor binding from cellfree DNA enables tumor subtype prediction and early detection' said "The position was recalculated by…
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Hi,
This is more of a question I had some tumor-normal data run with an unknown capture panel. I assume I can run it whole genome but am concerned the variant detection and copy number estimates w…
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Hi, everybody,
I am pretty new to coding and bioinformatics.
I am using Manta as a tool to infer somatic structural variants (SVs) from a paired tumor/normal sample call. However, my **somaticSV.vcf…
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