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How to calculate gene expression levels #6

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sekhwal opened this issue May 11, 2020 · 4 comments
Open

How to calculate gene expression levels #6

sekhwal opened this issue May 11, 2020 · 4 comments

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@sekhwal
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sekhwal commented May 11, 2020

Hi, I have output file (sorted BAM) generated from hisat2-2.2.0 pipeline, a reference fasta file and fastq file of MinION. Please let me know the command to RUN RSEM to analysis my data.
@sekhwal
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sekhwal commented May 14, 2020

Hi, I have output file (sorted BAM) generated from hisat2-2.2.0 pipeline, a reference fasta file and fastq file of MinION. Please let me know the command to RUN RSEM to analysis my data.

@sekhwal sekhwal closed this as completed May 14, 2020
@bli25
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bli25 commented May 14, 2020

@sekhwal , unfortunately, RSEM does not handle MinION data right now.

@bli25 bli25 reopened this May 14, 2020
@sekhwal
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sekhwal commented May 14, 2020

Is there any other way to handle data similar to RSEM for MinION?

@sekhwal
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sekhwal commented May 14, 2020

I have Illumina sequencing fasta files also. Could you please let me know how to install and RUN RSEM?

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@bli25 @sekhwal