differential expression - What does an FDR value of 1 in RNA-seq …
2018年12月3日 · FDR stands for False Discovery Rate.It is a statistic tool used in multiple hypothesis testing. As you may know, when you use a p-value cutoff (usually 0.05) for your …
5' and 3' bias in Rna-seq data - Bioinformatics Stack Exchange
2018年2月19日 · I'm working with rna-seq samples. I see 5' bias and also 3' bias in the per-base sequence content plot. From this link I see that the bias at the start of the sequences appears …
Why total RNA-seq usually yields low mapping rate?
2017年11月22日 · A likely explanation is that total RNA-Seq contains a high fraction of reads from ribosomal RNAs. Ribosomal RNAs are present in multiple copies across the genome, hence …
rna seq - Are mitochondrial genes to exclude in scRNA-seq such …
You might catch a few lucky ribosomal RNA (Rn45s) copies that were transcribed recently and still haven't been processed, but depending on your RNA-seq protocol, there's a chance they …
rna seq - What methods are available to find a cutoff value for non ...
2017年6月13日 · I have a gene expression count matrix produced from bulk RNA-seq data. I'd like to find genes that were not expressed in a group of samples and were expressed in …
rna seq - How can we distinguish between true zero and dropout …
2017年6月13日 · In single-cell RNA-seq data we have an inflated number of 0 (or near-zero) counts due to low mRNA capture rate and other inefficiencies. How can we decide which …
rna seq - RNAseq: Z score, Intensity, and Resources
2017年7月29日 · However, this presents a problem. Most of the procedures we use in standard gene expression analysis involve comparing one group to another after suitable normalisations …
rna seq - How exactly is "effective length" used in FPKM calculated ...
I have a blog post that describes the effective length (as well as these different relative abundance units). ). The short explanation is that what people refer to as the "effective length" is actually …
rna seq - Difference between CPM and TPM and which one for …
2017年8月15日 · What the difference between TPM and CPM when dealing with RNA seq data? What metrics would you use if you have to perform some down stream analysis other than …
Seurat for clustering bulk RNA-seq? - Bioinformatics Stack Exchange
I'm not sure Seurat is the best tool for this as it was developed for single cell RNA seq data and there are a few intricacies of that type of data that are very different from bulk RNA seq. For …