More posts like this
-
unmapped reads Kallisto bulk RNA-seq
written by Irene •Hi! I would like to recover unmapped reads from bulk RNA-seq data (fastq files) using kallisto but it seems there is no output file to …
-
kallisto -s o error
written by 1_GOld •Hello, I am a student who is trying to do deg through kallisto. The fastq data I use is single end, all sequences are 100bp, …
-
How do I go from TPM to PCA (rna-seq)?
written by biotrekker •Hello all, I am new to rna-seq analysis. I have abundance TPM information (kallisto output, from 400+ samples). I just want to perform clustering analysis? …
-
Making plots for enrichment and KEGG results
written by ymervenuryavuz •Hello everyone, With the clusterProfiler package implemented in R, I made gene ontology analysis with enrichGO function and KEGG analysis with enrichKEGG function. Gene ontology …
-
FINEMAP - output files
written by khnHello, Is anybody familiar with FINEMAP? There are some output files but it is a little complicated to interpret and be used for further analysis. …
-
transcript to gene mapping after sleuth run
written by bioinfo8Hi, I have ran kallisto and sleuth for my RNA-seq data and used the following for transcript to gene mapping before running sleuth: mart_11 <- …
-
When is HTSeq Count Script used?
written by oma219 •Hello, I was just wondering when in the pipeline is the HTSeq count function used? Is it only used when DESeq is being used for …
-
problem with PeakAnalyzer
written by Brice222 •Hello Is there anyone who has used the PeakAnalyzer for Analysis Chip seq? when "Go to the PeakAnalyzer directory and launch the program by typing": …
-
Processing RNA-seq data by following Roadmap Epigenomics Pipeline
written by Bioinformatist NewbieIs there anybody who followed the RNA-seq data analysis pipeline used for processing data used in Epigenomics Roadmap [publication][1]? If yes, kindly share your experience. …
-
relating variables to OTUs
written by Furor •Hello all, I don't know if this is the exact purpose of this forum, but perhaps you could redirect me. I have an OTU x …
Hello. I am the author of metaseqR. Maybe I can help you if you can be more specific. I admit to not have used Kallisto so I can't help without some extra information :)