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I have following example data from a large file.cont100 1128 1125cont1005 3642 3642cont1006 103 19cont1037 3146 3146cont104 895 890cont1056 934 934cont1059 1750 1750cont1072 2577 2577cont1078 43 42cont1081 727 2I...
Asked on 11/28/2020 by MudithMMBc
2 answerI have around 500 annotated proteomes of different bacterial strains and would like to quantify their similarity (or difference). I found gt genomediff from genometools gives me...
Asked on 11/26/2020
1 answerProblem: I am trying to convert some codes written in R to Python and part of that conversion process is find classes equivalent to the GRanges and IRanges from the...
Asked on 11/26/2020
1 answerI am interested in detecting allelic imbalance for a credible set of SNPs. Currently, I am looking for some packages, hopefully, for Python, that can assist with this. I am...
Asked on 11/26/2020 by Krizbomb
0 answerBelow are the statistics for RNA-seq mapped and unmapped paired-end reads to rice genome using reformat.sh from bbtools on bam files. It gives 77% mapped and 5% unmapped, what about...
Asked on 11/25/2020 by bioinfonext
2 answerI am storing a sequence aligment file on a webserver and now would like to visualize the results. I used the NCBI Multiple Sequence Alignment Viewer ....
Asked on 11/24/2020
0 answerI have differential binding sites object obtain from diffBind (dba.report). I am using the ChIP Seeker package to annotate the peaks but keep getting the following error: Error in (function...
Asked on 11/18/2020
0 answerI'm working with public dataset from here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE67047. I have downloaded the Series Matrix file, and I can extract metadata and genotype from it. I have some...
Asked on 11/17/2020 by Thanh Nguyen
0 answerI have a list of about 4000 PDB IDs and would like to get the actual names of the proteins (e.g. lactate dehydrogenase, cytochrome c). I tried the batch header...
Asked on 11/13/2020
2 answerWhen correcting my data for a batch effect using removeBatchEffect, some of the gene expression values become negative. When searching for differentially expressed genes, I do not use the data...
Asked on 11/09/2020
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