85 results in 0.0027 seconds.
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DESeq2 q normalization RNA-seq and small RNA-seq
Hi I have RNA-seq and small RNA-seq data and I would to compare the expression of the RNAs with the expression of the small RNAs. Is it correct if I used... -
Alternatives to SequalPrep
Hi,
I am looking for alternatives to SequalPrep as they are on backorder for a few months and we are in busy mode.
Than... -
edgeR, "DGELIst" function, "group" parameter
Hi,
I am using edgeR for some RNASeq analysis. My question concerns the DGEList function and its "group" parameter. I realized... -
Normalization by the library size during variant detection
Hello:
Suppose I have two libraries that do not have the same number of reads, but otherwise they are similar. During variant detection,... -
RNAseq normalize DE by edgeR with transfection positive control gene
I am trying to normalize my RNAseq data to take into consideration transfection efficiency. I have two conditions that were applied to cells in culture,... -
Spike-in sets for small RNA seq?
I'm thinking of making a commercial offering of the SRQC and ERDN spike-in sets for small RNASeq: http://nar.oxfordjournals.org/content/early/2015/04... -
Normalization and analysis of proteomic spectral count data
I have spectral count data (SomaScan proteomics read).
What I have is protein name / uniprot identifier and a count (e.g., 188.9 or 106219.5)....Last edited by bjackson; 05-08-2015, 01:45 PM. -
Normalize small RNA data with spike-in controls?
Dear all,
I am planning to sequence small RNAs from my control and mutant cells and I was wondering what is the best way to normalize the... -
Normalization in single cell RNA-seq data
Hi All,
I've been testing various differential expression analyses on my single-cell RNA-Seq data either using FPKM (generated by Cufflinks,... -
RNA-seq normalization
Hello,
I have a raw count data matrix (with genes in rows and samples in columns) that needs to be normalized. I can't use DESeq2 or Limma... -
ONCOCNV: a method to extract CNAs from amplicon (or targeted) sequencing data
We are happy to present ONCOCNV, a method to detect copy number alterations in amplicon or targeted sequencing data. The method can be applied to exome-seq...Last edited by valeu; 02-10-2015, 09:34 AM. -
miseq run troubleshoot and advice on nextera xt library normalization
Hello,
I would like to ask for some advice on normalization of Nextera XT libraries that will be sequenced on Miseq (paired ends 2x150).... -
Introducing BBNorm, a read normalization and error-correction tool
I'd like to introduce BBNorm, a member of the BBTools package.
BBNorm is a kmer-based normalization tool for NGS reads, which may also be...Last edited by Brian Bushnell; 01-29-2015, 09:47 AM. -
Treatment of ChIP-Seq Input
Hello all! I have placed this in the Bioinformatics forum because I believe this might be a more statistical problem, but if I'm incorrect, please don't... -
RNA-seq normalization in samples with different cell densities
Hi all,
We are going to make an experiment involving D melanogaster samples each of wich include about a 25 % of cells being part of a...
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