Bioinformatics Asked by mobasher barsi on March 30, 2021
I’m using STAR to align fastq files from SMART-seq2. I have raw data folder containing sub-folders with samples names the sub-folders each contain fastq file. How can I make a bash command in order for STAR to go in each of sub-folders and make alignment for the fastq file and retrieve the bam files in one folder?
Folder structure: /plates/plate_1/rawdata/A1/A1_R1.fastq
/plates/plate_1/rawdata/B1/B1_R1.fastq
/plates/plate_1/rawdata/C3/C3_R1.fastq
It’s 384 sample folders A1, A2, B3, F5,,, so on
Thanks,,
0 Asked on April 21, 2021 by andrew-scarborough
2 Asked on April 18, 2021
0 Asked on April 18, 2021 by mwp
2 Asked on April 15, 2021 by emma-athan
0 Asked on April 15, 2021 by ahmedbar
functional annotation hmmer sequence alignment sequence annotation
1 Asked on April 14, 2021 by heather-harrington
1 Asked on April 13, 2021
2 Asked on April 13, 2021 by fp1234
4 Asked on April 11, 2021 by mzzx
0 Asked on April 10, 2021
1 Asked on April 9, 2021 by pippo1980
1 Asked on April 9, 2021 by samir-bouftass
Get help from others!
Recent Answers
Recent Questions
© 2023 AnswerBun.com. All rights reserved. Sites we Love: PCI Database, MenuIva, UKBizDB, Menu Kuliner, Sharing RPP, SolveDir