Got the answer from Bioconductor support
Thanks to johannes.rainer
https://support.bioconductor.org/p/64409/#64433
Hello,...
29 results in 0.0023 seconds.
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Binning expression data along with capturing gene identifiers
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DESeq2 - proper normalization for clustering?
Hello all,
While I know that there is no "right" way to perform clustering, I am wondering whether the rlog normalization in... -
RNA-seq sample clustering using NMF package
I want to cluster RNA-seq samples (417 samples) using based on the expression levels of a group of selected genes using NMF method. Having a matrix (mat)... -
When to amplify libraries for RNA-seq?
Hi,
I have a relatively basic question. I am performing RNA-seq on some small tissue samples and I have constructed my first set of libraries... -
CD-HIT-EST-2D Error: segmentation fault ('core' dumped)
Hello,
I am using CD-HIT-EST-2D in order to compare two contigs files in fasta format. I have been using it for several files and it worked... -
Amplicon sequencing & clustering using Pacbio
Hi there,
It is my first post and hope anyone would help me.
I have PCR amplicon which was amplified using mixture of templates with different... -
RNASeq data-set for machine learning
Dear all,
I'm looking for an RNASeq data-set to test machine learning classification algorithms. Specifically, the set should contain >=... -
Blastclust clustering algorithm
Hi
I'm trying to find the original publication of blastclust- or an explenation of how the clustering is made.
I tried to cluster a group of... -
How to cluster samples with PCA in R?
Hi,
I have RNA-seq data for 16 mouse samples. I would like to cluster cufflinks results of these samples by PCA in R. The data looks like... -
Clustering sequences based on sequence similarity
I have 8000 protein sequences that I want to cluster based on similarity (not identity) and select the longest representative sequence from each cluster.... -
Sequence based clustering to divide into groups
Hello All,
I have a set of ~1000 sequences, they are of different length, minimum being 500nt. I want separate them into groups on the... -
Excess Tween 20 in library for HiSeq
I recently prepared a library using the Multiplexed Shotgun Sequencing protocol (citation below) and sent the library off for sequencing on Illumina HiSeq.... -
TGICL installation
Hi everyone
This is my problem, I've tried to install TGICL for clustering EST, from
http://sourceforge.net/projects/tgicl/
... -
Clustering RPKM data
Hello,
I'm trying to work with RNAseq data that has been pre-processed into RPKM values. I've read a number of threads on here about why...
