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License: Apache License 2.0
metagenome simulation for targeted and reduced-representation sequencing
License: Apache License 2.0
allow many iterations of abundance profiling after initial digest
call a combination of sed, awk, and c++ scripts to randomly sample and redistribute error to existing, simulated fastq files.
In 'process_df' function of readsynth.py, there is a condition where reads cut with the same m1/m2 RE can produce the same fragment, stored once as the forward and once as the reverse strand version. These reads should be adjusted at some point in the pipeline to reduce overrepresentation.
Add the ability to mutate bases based on an existing Illumina sequencing run.
if no adapters are included, the write script under "create_seqs' expects args.a1/a2 and fails to draw from these lists. Allow a scenario where no adapters are utilized for user testing purposes.
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