User: mlemusfuentes

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Posts by mlemusfuentes

<prev • 13 results • page 1 of 2 • next >
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detection of single nucleotide variations with RNA-seq
... hello everyone, I need know if someone has performance detection of single nucleotide variants (SNVs) using RNA-seq data. I know that the gold standard method is whole genome or exome sequencing (WGS or WES), but I need to implement a method less expensive for the determination of SNVs. I found a s ...
snv rna-seq written 2 days ago by mlemusfuentes10
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Comment: C: select of genes
... Thanks for the tips, I use the filter function and the range you suggested and I got what I needed. thanks again. filter (Foldchage> 0.75 | Foldchage < 1.25) ...
written 17 months ago by mlemusfuentes10
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Comment: C: select of genes
... dear, my data.frame looks like this, I have searched how to do the selection of the genes that have a range of Fold Chage, but when I observe the data.frame filtered they are not what I want. I used this command genes_select = my_dataframe%>% select (Foldchage> 0.75 | Foldchage> ...
written 17 months ago by mlemusfuentes10 • updated 17 months ago by WouterDeCoster44k
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select of genes
... hello everyone I'm working on an RNA-SEQ analysis and I want to select the genes that have a fold change between 1.25 and 0.75 from a data.frame, this it locates the genes in the rows and the statistics in the columns, so the data I want get are from the same column. How can I do this? thank you ...
rna-seq written 17 months ago by mlemusfuentes10 • updated 16 months ago by Biostar ♦♦ 20
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Comment: A: RNASeq_pipeline.config.sh of HISAT
... -Configuration file for rnaseq_pipeline.sh -Place this script in a working directory and edit it accordingly. -The default configuration assumes that the user unpacked the -chrX_data.tar.gz file in the current directory, so all the input -files can be found in a ./chrX ...
written 2.3 years ago by mlemusfuentes10 • updated 2.3 years ago by genomax92k
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RNASeq_pipeline.config.sh of HISAT
... Hello everyone I wanted to make a query regarding the use of the script available in the tutorial version of hisat (transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown). The script is named rnaseq_pipeline.config.sh. in the final part the addition of the sa ...
rna-seq written 2.3 years ago by mlemusfuentes10
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Comment: A: HTSeq-count in RNA-Seq
... hi Eric Lim, thanks for you answer, but I'm confused, how to use -t? htseq-count -f bam -r name -t?... Watch for your comments thanks. ...
written 2.4 years ago by mlemusfuentes10
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HTSeq-count in RNA-Seq
... **strong text**hello everybody, I'm doing for the first time an analysis of differential gene expression. already perform the alignment with tophat, then use samtools sort for the reads and now I want to count the readings with the HTSeq-count. htseq-count -f bam -r name filesorted.bam hg19_ge ...
htseq-count rna-seq written 2.4 years ago by mlemusfuentes10 • updated 8 months ago by Balatheskulter0
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Answer: A: how to use samtools sort correctly?
... hi everybody, I wanted to comment how finished my history with "samtools sort" my mistake was, the syntax of the command I used this command: **$Samtools sort -n $Temp/$i.out/accepted_hits.bam -o $oDirectory/$i.out/accepted_hits_sorted.bam** and the correct command it's **samtools sort -n inpu ...
written 2.4 years ago by mlemusfuentes10
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Comment: A: how to use samtools sort correctly?
... thank you for reply genomax and Wouterdecoster. I was checking my menory capacity and apparentely that's the problem. when I solve this, I tell them if I solved the problem. thanks again ...
written 2.4 years ago by mlemusfuentes10

Latest awards to mlemusfuentes

Popular Question 17 months ago, created a question with more than 1,000 views. For HTSeq-count in RNA-Seq
Popular Question 17 months ago, created a question with more than 1,000 views. For Build a HISAT2 index of hg 19
Popular Question 21 months ago, created a question with more than 1,000 views. For how to use samtools sort correctly?

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