Thank you for providing the sgnex dataset.
I was trying to compare the expression profile between ont_directRNA and Illumina shortread data, yet when I did the differential expression, it appears to me that the Illumina short read data Hct116 and HepG2 replicates are mixed up. Could you please confirm it?
I was downloading the fastq.gz file from following directories and performed the analysis to get gene counts accordingly.
s3://sg-nex-data/data/sequencing_data_ont/fastq/
s3://sg-nex-data/data/sequencing_data_illumina/fastq/
Hi,
Thank you for providing the sgnex dataset. I was trying to compare the expression profile between ont_directRNA and Illumina shortread data, yet when I did the differential expression, it appears to me that the Illumina short read data Hct116 and HepG2 replicates are mixed up. Could you please confirm it? I was downloading the fastq.gz file from following directories and performed the analysis to get gene counts accordingly. s3://sg-nex-data/data/sequencing_data_ont/fastq/ s3://sg-nex-data/data/sequencing_data_illumina/fastq/
Best, Sandy