Question: Does the AI package also allow more than one seqlevel?
0
gravatar for sannysandra93
3.8 years ago by
Netherlands
sannysandra930 wrote:

Hi,

I am examining a sample on a MCF-7 cell line (of paired-end RNA seq data including the SNP array data) where I want to investigate the allelic imbalance Genome Wide, not just one specified region (for example: "searchArea"). This way, I could find genes where allelic imbalance occur instead of the other way around. I was wondering if the AllelicImbalance package allows more than one seqlevel for each BAM file. And what will be the alternative solution to this problem?

Kind regards,

Sandra

allelicimbalance • 404 views
ADD COMMENTlink modified 3.8 years ago by lasfol10 • written 3.8 years ago by sannysandra930
Answer: Does the AI package also allow more than one seqlevel?
1
gravatar for lasfol
3.8 years ago by
lasfol10
Technical University of Denmark
lasfol10 wrote:
Hi! We are working on it - see the github discussion https://github.com/pappewaio/AllelicImbalance/issues/6 Welcome to join that and come with a request for multi-seqlevels. That specific part should actually be quite fixable. /Lasse > sannysandra93 posted the Question: "Does the AI package also allow more > than one seqlevel?": > > Hi, I am examining a sample on a MCF-7 cell line (of paired-end RNA seq > data including the SNP array data) where I want to investigate the allelic > imbalance Genome Wide, not just one specified region (for example: > "searchArea"). This way, I could find genes where allelic imbalance occur > instead of the other way around. I was wondering if the AllelicImbalance > package allows more than one seqlevel for each BAM file. And what will be > the alternative solution to this problem? Kind regards, Sandra > > --- > See the full post at: Does the AI package also allow more than one seqlevel? > Replying to this email will post an answer to the question above. >
ADD COMMENTlink written 3.8 years ago by lasfol10
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