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How to assess extent of cell-type admixtures from bulk RNA-seq data for a single tissue?

deconvolution scrna-seq cellmix rna-seq written 4 months ago by nancy • 60 • updated 4 months ago by YaGalbi • 1.3k

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Deconvolution Methods on RNA-Seq Data (Mixed cell types)

deconvolution rna-seq written 3.0 years ago by Paul.Lin • 90 • updated 11 months ago by inesdesantiago • 140

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deconvolution of heterogenous cell types in RRBS data

deconvolution methylome rrbs written 19 months ago by rahel14350 • 20

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812

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RNA-Seq expression analysis of heterogeneous data (cancer+healthy cells)

deconvolution heterogeneous rna-seq written 21 months ago by Nicolas Rosewick ♦ 6.8k • updated 21 months ago by Steven Lakin • 1.4k

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Cellmix vs CellCODE

deconvolution written 2.4 years ago by chrisclarkson100 • 50 • updated 2.3 years ago by Biostar ♦♦ 20

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804

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DNA sequence origin mapping [blast]

reads species deconvolution mapping written 2.9 years ago by Shicheng Guo • 6.9k

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blood deconvolution - cellmix

cellmix deconvolution microarray written 3.1 years ago by kuragari.ch • 20 • updated 3.0 years ago by Biostar ♦♦ 20

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Differential gene expession analysis in cell populations of mixed tumor and normal cells

deconvolution cell-type deseq rna-seq edger written 3.9 years ago by Christian • 2.7k

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Recent Replies

C: How to read an mpileup file from Samtools into Python by Pierre Lindenbaum ♦ 113k
> I have tried several times, but it is just not working. I have a txt file instead on an mpil...
C: How to separate mixed orientation raw illumina sequence into forward and reverse by will.wcb • 10
Thank you very much. I thought this to be the case as well, but I am inexperienced, and the docum...
C: Network Analyzer in Cytoscape by The Last Word • 160
Hi Jean, just to clarify, the correlation refers to the correlation coefficient right? It just sa...
C: So frustrated compiling necessary packages in a linux system by cmdcolin • 900
linuxbrew/homebrew at least need git installed
C: how to correct this Error while building index from .bam file? by jaqx008 • 40
Thank you, this was my mistake, Its good now. again thanks
C: how to correct this Error while building index from .bam file? by jaqx008 • 40
Thanks for your response, the problem was I did not sort the bam. I sorted it now and I dont get ...
C: how to correct this Error while building index from .bam file? by jaqx008 • 40
Oh. I did not sort it. I am sorting it now so I can make index off the sorted file. I think that ...
C: HISAT2 Indexing using annotation for Rattus_norvegicus by neranjan • 0
Yes that might help me , Thank you very much for the help. I am using the files hosted by Ensemb...
C: how to correct this Error while building index from .bam file? by h.mon ♦ 20k
Did you sort the bam file? What was the command used to create the bam file?
C: Removing primers with degenerate codes by life99945 • 0
Thank you very much!
C: how to correct this Error while building index from .bam file? by Pierre Lindenbaum ♦ 113k
validate your bam file. what is the output of `samtools view -c file.bam` ? if there is an erro...
A: How to separate mixed orientation raw illumina sequence into forward and reverse by mike-zx • 100
I am a little bit confused since the example lines you posted seem to be the correct expected out...

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