User: beneopp

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beneopp0
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Posts by beneopp

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What Algorithms are Needed in the Sequencing Community?
... Hi, I am a bioinformatics researcher in a team that is thinking of coming up with an algorithm which would find the appropriate matrix to use in attempting to annotate a protein sequence taking into consideration the difference of years in evolution between the species of the query sequence and the ...
alignment sequencing written 6 months ago by beneopp0
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How to find the gene family of all Xenopus laevis genes
... I am trying to find a file I can use to connect a gene's name to a gene family as a python dictionary. For example, I would like to create a dictionary similar to the following: {aadac: Arylacetamide deacetylase}. Does anyone know how I could do that? ...
genome gene written 19 months ago by beneopp0
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How do you use MultiQC on FastQC files taken from SRA files?
... Hi. I am new to Galaxy and bioinformatics so feel free to let me know if there is a better way of asking my question. The files were executed in a way that the MultiQC did not recognize the files existed. I downloaded SRA files to Galaxy. These files were transfered to a Paired-end data folder with ...
sra galaxy fastq-dump multiqc fastqc written 20 months ago by beneopp0 • updated 7 months ago by dgpiury0
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Buried Protein Atoms vs. Solvent-Accessible Protein Atoms
... I am trying to come up with an algorithm that would differentiate solvent-exposed surface atoms from cavities which can fit water inside. Unfortunately, it seems the Shrake-Rupley algorithm does not make this distinction. ...
protein structure accessible surface area written 23 months ago by beneopp0 • updated 23 months ago by h.mon30k

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Popular Question 18 months ago, created a question with more than 1,000 views. For How do you use MultiQC on FastQC files taken from SRA files?

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