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Is it possible to make an allele-specific map with for genomes with ploidy > 2?
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Hi,
I found No reads in Output of MMARGE.pl allele_specific_reads
samtools view
it was data from F1 mice
I run:
MMARGE.pl allele_specific_reads -files S1_shifted_from_CAST_EIJ.sam -ind …
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I hope this message finds you well. I am currently working on a project involving GWAS summary statistics. Your `MungeSumstats` package has been incredibly useful for standardizing these datasets, an…
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Add HiC-pro functions for allele-specific analysis
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Hi. i have provided the two different alleles in my reference sequence. however, i'm not sure if kallisto can handle this properly. also, what happens in the case of homozygosity? is the tpm reported …
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Hello,
Thank you for developing this nice tool.
I'm interested in analyzing allele-specific expression (ASE) in my single-cell RNA-sequencing (scRNA-seq) data. This data comes from offspring tissues…
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Hi Venkat,
I am trying to clarify about FACET's output when we have at least one subclone along with the clonal cluster. I understand that is indicated by K in FACET's notation with K=1 is clonal.
…
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py-ARD doesn't seem to have a redux mode for first-field DNA nomenclature yet.
The current US organ allocation system supports all three of these HLA specificities: `DRB3*02:02`, `DRB3*02`, and `DR…
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@akiezun commented on [Tue Jun 21 2016](https://github.com/broadinstitute/gatk-protected/issues/576)
Allele Specific mode for VCFs is currently not implemented. the task is to add that mode - require…
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Hello,
I ran phASER for multiple samples and extracted allele specific expression for each sample independently.
Seen that these samples are split into case/control, I would like to process these …