User: Diego D.

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Diego D.50
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5 years, 8 months ago
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Posts by Diego D.

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Specific question about the strands in Illumina paired-end libraries
... Hi genomax, Thank you for the feedback. I will check that document out! ...
written 4 weeks ago by Diego D.50
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Comment: C: Specific question about the strands in Illumina paired-end libraries
... Thanks for the quick response! ...
written 4 weeks ago by Diego D.50
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Specific question about the strands in Illumina paired-end libraries
... I have a couple of questions regarding Illumina Sequencing. I have done some research on the subject, but I haven't been able to find a satisfactory answer. *Some preamble*: When we generate paired-end libraries, I know that every read in a pair corresponds to the 5->3' end of one of the strand ...
sequencing written 4 weeks ago by Diego D.50
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Answer: A: relationship between coverage and expression level in RNAseq
... Yes, if you use the same method to normalize the counts, you will get similar MA plots (in theory). At greater coverage, maybe you will see more dots, because there will be more genes detected. The reads generated during the sequencing should be randomly distributed, except if the process runs into ...
written 4.4 years ago by Diego D.50
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Answer: A: miRNA target prediction tools
... Hi Shzad, Most softwares search for host miRNA targets. Anyway, there are several toos for miRNAs target prediction that you could use. Vita http://vita.mbc.nctu.edu.tw/ TargetScan http://www.targetscan.org/ VIRmirRNA http://crdd.osdd.net/servers/virmirna/ Good luck! ...
written 4.5 years ago by Diego D.50
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Answer: A: How to get downstream promoter sequences using BiomaRt
... I don't really sure if I understood well, but do you want to get the +- 1000 region from 5utr_start? right? If that is the case, maybe you should try the "flank" function from GenomicRanges package. For example, ensembl=useMart("ensembl") ensembl = useDataset("hsapiens_gene_ensembl",mart=ensembl ...
written 4.5 years ago by Diego D.50
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How To Make A Phylogenetic Tree From A Binary Matrix
... Hello :) I need to generate a phylogenetic tree from a binary matrix. First, i mapped the reads to the reference genome, then, i made the SNP calling with samtools, finally, i wrote a small script in perl to construct the matrix. I have seen that there is a R package called "ape" that i can use f ...
written 5.7 years ago by Diego D.50 • updated 3.1 years ago by katherine4450
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Comment: C: Multi-Sample Vcf To Phylogenetic Tree.
... when i execute the R script i get the following error "Removing 181 non-autosomal SNPs Error in snpgdsDiss(genofile) : There is no SNP!" Obviously, the error is because there aren't SNPs. What parameter do i need to change to avoid this problem? , Thanks! ...
written 5.7 years ago by Diego D.50

Latest awards to Diego D.

Popular Question 4.2 years ago, created a question with more than 1,000 views. For How To Make A Phylogenetic Tree From A Binary Matrix
Scholar 4.4 years ago, created an answer that has been accepted. For A: relationship between coverage and expression level in RNAseq

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