I need to analyze down-sampled data of couple of Rna_Seq full data set (samples,paired-end,fastq).sub-sampling method should work the same for all samples. In the end I compare for example how 5% of full data differs from 10% of full and 20 and 40% as well. (a sample is :ERR188044) The final graph will depict how amount of data affects the result.
The question is : How to download the data in these four forms ? shall I firstly download the full data and then downsample ? Or I can directly download down-sampled data. how to sub-sample data to get only a few number of specific chromosomes ? how to sub-sample data to get only a percent of whole paired-end reads?
What do you suggest me to do ?
Your advice is appreciated.