Question: Looking for tools to simulate expression data (RNAseq, proteomic, arrays)
1
gravatar for Israel Barrantes
2.5 years ago by
Germany
Israel Barrantes790 wrote:

I'm looking for tools to simulate expression data (RNAseq, proteomic, arrays), especially generating tissue-, organ- and/or species- specific datasets. Better if the data is already quantified (e.g. mapped read count tables instead of simulation of FASTQ Illumina data). Comments/experiences appreciated.

ADD COMMENTlink modified 2.5 years ago • written 2.5 years ago by Israel Barrantes790
1

It is possible that you may be able to find real data that satisfies those criteria.

This is a slightly dated post about NGS data simulators (NGS reads simulation ). Should still be useful. It probably does not include randomreads.sh from BBMap suite so add that to the list.

ADD REPLYlink written 2.5 years ago by GenoMax96k

Thank you for your input.

Yes, in many cases you can obtain such datasets from public sources (GEO, ArrayExpress, ENCODE and so on), but not in every case. Therefore the question.

ADD REPLYlink written 2.5 years ago by Israel Barrantes790

simseq for illumina PE read simulation

ADD REPLYlink written 2.5 years ago by cpad011215k
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