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So there is some need to think about in silico MS/MS from a variety of proteomics and metabolomics sources. With real data, there is no need to think about parameters in generation because the data is…
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Optimize the biomass production in one (or each) of the defined medium/a and record the outcome.
- [x] Run optimization once and see the outcome.
- [ ] Tabulate the results to decide curation strat…
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Working on is in branch rad.
Need to decide on output format. Corresponds to step 5 output of ipyrad - https://ipyrad.readthedocs.io/en/latest/7-outline.html#consensus-base-calling-and-filtering
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Create a C code that digests a genome in specific target sites in a reasonable time.
Features:
- Read a integration site table where the digestions will be computed (TRiP/BHIVE integration sites).…
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Hello Gert-Jan,
I have the same problem as #12. I've used the latest version 0.2.0 of CRABS, but I still get the error. Here are my code and results.
crabs insilico_pcr --input BOLD.fasta --out…
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Hello,
Thank you very much for providing this exciting tool!
I am interseted in the "In silico spatial transcriptomics", which predict the gene expression from the sole H&E stain images.
…
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Hello,
I believe there's a typo on the In_silico_digest_sorghum_genome R script (line 58) where this:
insilico.digest(rfsa, cs_5p1, cs_3p1, cs_5p1, cs_3p1, verbose=TRUE)
should be:
insilico.di…
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I'm trying to conduct an in silico PCR with a multiplex primer set, looking for non-specific amplification in the mouse transcriptome. The mouse transcriptome fasta contains multiple records (per tran…
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Hello, I am wondering, does the _in silico_ read normalization script included with Trinity have any capacity to preferentially retain longer reads when choosing which reads to keep or discard? For e…
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pext scores are Beryl's transcript aware expression score. I was hoping it could be added to the in silico list. We use it in the opposite way from most scores - we use the score to downweight variant…