When to run fastq-dump --split-files -X 10000 ?
I am doing RNA-Seq data analysis of SRA data. I am not understanding the purpose of command
fastq-dump --split-files -X 10000
Why to split file? and if i don't know the data is paired end or single end. is there is need to use -X 10000 ?
Thanks in advance
• 1,603 views
•
link
updated
by
Devon Ryan
•
written
by
akshay_ware •
•
written
by
akshay_ware •
1 answer
If you always use --split-files then you never have to worry about forgetting to use it with PE data. There is no reason to use -X 10000 unless you just want a subset of the reads for testing something quicker.
• 0 views
•
link
written
by
Devon Ryan
Log in to answer this question.
More posts like this
-
Downloading paired end fastq data from SRA
written by Matheus •
-
sc-RNA seq DATA
written by Researcher •
-
How to download multiple SRA fasta files in ubuntu
written by wyt1995 •
-
getting paired end datasets from SRA
written by from the mountains
-
Issue separating mate pair fastq files from a paired-end sequencing dataset
written by marvel479 •
-
fastq dump usage of microRNA-seq data
written by K.patel5 •
-
Paired-end SRA experiment, two samples come out as single-end
written by xarielle •
-
fastq dump error
written by Satyajeet Khare
-
SRA to fastq
written by vimlakany •
-
fastq-dump download pair-end fastq without split-files
written by Shicheng Guo
