For the ROSMAP cohort, I wanted to clarify the library type, assuming paired end reads was the orientation of the reads inward, outward or matching? Or is there a way to obtain this information from bam files?
Created by S Canchi scanchi fastq files on the ROSMAP cohort are available through the RNAseq reprocessing project. See here for how that was done: syn9702085 Are the trimmed fastq files available for download for the ROSMAP dataset? Thank you! I was curious to find out which aligner was used to map against the hg19 version of the genome and why was this particular version choosen? Are the FASTQ files also available for download ? Majority ROSMAP samples were prep by Illumina dUTP protocols and small batch of samples were done by Illumina TruSeq protocol. Libraries then were sequenced by Illumina HiSeq machines. From what I know, Illumina's pair-end sequencing reads are always "inward" oriented. Hi @leiyu - do you know the orientation of the reads for the ROSMAP RNAseq? Thanks