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Results tagged with rna-seq
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user 17761
Questions should include this tag if they pertain to issues related to bioinformatics analysis of RNA-seq data, e.g. normalization, differential expression analysis, sequencing and experimental design or transcriptome assembly...
0
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Paired end reads with different read lengths
I downloaded some raw RNA-seq reads from NCBI using the sra-toolkit (Accession numbers: SRR2053159-64). The reads were generated using ABI SOLiD, and in colour space. I downloaded them in base space i …
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1
answer
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DE analysis tool and method for non-coding features
I am currently working with the non-coding features of A. thaliana, and trying to get the DE features. Among the three DE test methods in edgeR such as exactTest(), glmFit() and glmLRT(), glmQLFit() a …
1
vote
1
answer
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Filtering criteria for non-coding features with very low counts
I am trying to do DE analysis of non-coding features of A. thaliana. I find in the miRNA and lncRNA counts file that they are abundant in zero counts, and most of the non-zero counts are very low. Now …
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1
answer
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Statistical methods suitable for DE analysis of non coding RNAs
I am currently working on DE analysis of coding as well as non-coding features of A. thaliana using the edgeR package.
Is the negative binomial method that is normally used for the DE analysis of gene …