- Total activity 9
- Last activity
- Member since
- Following 0 users
- Followed by 0 users
- Votes 0
- Subscriptions 3
CommentsRecent activity by Lauren Fedenia Sort by recent activity
The expected depth of coverage is 40 for my samples.
java -jar picard.jar FastqToSam F1=Red_sorghum_bulk_FseI_130bp_seqs.txt.trimmed_seqs.fastq O=red-bulk_unaligned_reads.bam READ_GROUP_NAME=@D00572.1 SAMPLE_NAME=RedBulk LIBRARY_NAME=Illumina-111111 ...
Genevieve, Yes, we are concatenating 70 fastq files/samples per bulk pool to perform variant calling on. When I we analyze the depth and coverage outside of the GATK pipeline, we do not obtain a...