User: said3427

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said342770
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Mexico
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Posts by said3427

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Low fragment assignment RNAseq
... You are right, I have contamination ...
written 3 months ago by said342770
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Low fragment assignment RNAseq
... Hello, I have RNAseq data (2x76 bp) from Mouse, the objective of the study is to run a standard differential analysis. After adapter and quality trimming using Trim_galore, I aligned the reads using HISAT2 v2.1.0 hisat2index="/mnt/b/references/grcm38_snp_tran/genome_snp_tran" hisat2 -q - ...
rna-seq written 3 months ago by said342770
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Answer: A: Error in quantro function
... Late response, but I just got the same error. You have to remove rows containing NaNs Try: qtest <- quantro(object = MetDataset[complete.cases(MetDataset),], groupFactor = Status$Status) ...
written 4 months ago by said342770
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Comment: C: Sequence duplication levels-RNA Seq
... > In RNA-Seq libraries sequences from different transcripts will be present at wildly different levels in the starting population. In order to be able to observe lowly expressed transcripts it is therefore common to greatly over sequence high expressed transcripts, and this will potentially creat ...
written 5 months ago by said342770
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Answer: A: What's the difference between 'clipping' and 'unmapped' and 'skipped'?
... `36S76M` means 36 nucleotides are soft-clipped (nts that are not part of the alignment but present in the read) + 76 alignment matches. ...
written 5 months ago by said342770
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Answer: A: BWA error [bns_restore_core] Parse error reading
... `sed -i 's/\s*$//g' db/contaminants` `bwa index db/contaminants` ...
written 6 months ago by said342770
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Answer: A: [Python] reads from fastq file
... from Bio import SeqIO SeqIO.convert('myfile.fastq','fastq','myoutput.fasta','fasta') ...
written 6 months ago by said342770
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Comment: C: Bundle file for mouse
... https://www.biostars.org/p/84501/#84582 ...
written 6 months ago by said342770
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Answer: A: How to order columns of heatmap as they are in matrix data
... Heatmap(matrix_data, cluster_columns = FALSE) ...
written 9 months ago by said342770
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Comment: C: Micro array cancer data analysis and Visualization
... what kind of microarray do you have? Do you have some examples of the expected plots? ...
written 10 months ago by said342770

Latest awards to said3427

Supporter 6 months ago, voted at least 25 times.
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: [Python] reads from fastq file

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