User: eva-valerie

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Posts by eva-valerie

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miRDeep2: creating Rfam index not possible therefore no Rfam analysis
... Hi, I am trying to run miRDeep2. the subscript make_html.pl uses Rfam to find out more about the sRNAs in question. For this it must creates an bowtie index of the Rfam.fa to map the reads to it. My miRDeep2 however is located in a directory on a server where it does not have the permissions to ...
mirna annotation rfam mirdeep2 written 6 months ago by eva-valerie0
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Comment: C: snRNA annotation in genome
... Hi Puli, thank you for the answer but I am not sure if I can use these tools. As far as I understand it, snoscans looks for 2'-O methylation sno guide RNAs and miR-PREFeR predicts miRNAs in plants. I am looking for a tool that allows me to annotate small RNAs (siRNAs, piRNAs, miRNAs) in a genome ...
written 8 months ago by eva-valerie0
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snRNA annotation in genome
... Hi, I would like to annotate all small RNAs in a genome based on different databases (e.g. miRBase) with the purpose of generating a gff file I can use for further analysis (and to practice). I searched for tools to achieve this and my ideal tool has the following qualities: 1. I can provide var ...
annotation small rna rna-seq written 8 months ago by eva-valerie0 • updated 7 months ago by Biostar ♦♦ 20

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