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I'm trying to run a braker with genome file only to see if it's working or not before running with all the datasets. But I'm getting this error again and...
Asked on 02/06/2021
0 answerI have a fasta file like this:>Id1ATCCTT>Id2ATTTTCCC>Id3TTTCCCCAAAA>Id4CCCTTTAAAI want to delete sequences that have the following IDs.Id2Id3The IDs are in a .txt file, and the text file will be...
Asked on 02/04/2021 by andresito
6 answerBoth DESeq2 and edgeR have an FPKM/RPKM function that by default uses normalized library sizes ("robust" option in DESeq2). FPKMs have their own issues, but I thought the main benefit...
Asked on 02/03/2021
1 answerI want to calculate the homoplasy excess ratio for a phylogenetic tree, for example homoplasy resulting from recombination. I am wondering if there are any R packages out there that...
Asked on 02/03/2021
1 answerI seem to have landed on the mitomap.org site, but I don't know what to make of it or what do with it / how to get...
Asked on 02/02/2021
1 answerI have an awk command that identifies 30 pb from two multifasta files. When I used two input files:E.g. 100 sequences each, I get the same result with the awk...
Asked on 02/02/2021 by GSQ
0 answerQuestion: Why is there a minus in the 2ˆ(–delta delta CT) formula? My line of thoughs: Consider Ct values of some pPCR experiment (some gene of interest X and a...
Asked on 02/02/2021
0 answerI'm working on a neural-network-based model for predicting if a primer will successfully hybridize with a mutated DNA template during a PCR reaction. This could be useful for all research...
Asked on 02/01/2021 by Jantek Mikulski
0 answerGenome information：~50M nt2300+ contigsNo pre-trained parameters in AugustusThere are several well annotated RefSeq genomes of this genus.There are several RNA-seq data of this genus, but not in...
Asked on 01/30/2021
1 answerGenerally, RNA-seq analysis tools like edgeR or DESeq2 work on gene-level data. For differential expression (or differential transcript usage), transcript-level data has its own caveats. However, for just visualization, is...
Asked on 01/30/2021
0 answerGet help from others!
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