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Published 20 hours ago • verified publisher icon bli25

How to calculate gene expression levels

Open sekhwal opened this issue 4 years ago • 4 comments

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 avatar May 11 '20 18:05 sekhwal

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 avatar May 14 '20 17:05 sekhwal

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

bli25 avatar May 14 '20 17:05 bli25

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

sekhwal avatar May 14 '20 18:05 sekhwal

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

sekhwal avatar May 14 '20 18:05 sekhwal