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Tutorial: BrainArray CDF, annotation, etc

db tutorial brainarray cdf written 5 weeks ago by Kevin Blighe ♦ 66k

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695

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CDF file for Cytoscan arrays

array cystoscan cdf written 19 months ago by jgarces • 20

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881

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Error in get(cdfname, object 'mm430mmentrezgcdf' not found

rma affy cdf affymetrix written 23 months ago by Walter Jessen • 90

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2.4k

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How to use Brainarray CDF for gcrma?

u133aaofav2 gcrma cdf written 3.9 years ago by oolongoni • 10 • updated 2.7 years ago by sinnamone • 0

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1.1k

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How to generate .db package from a custom cdf?

array cdf written 4.4 years ago by Nachocab • 100 • updated 3.0 years ago by lessismore • 930

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1.7k

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5 follow

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Microarray data analysis - pipeline (problem with custom CDF)

arrayexpress rma cdf microarray affymetrix written 3.2 years ago by lessismore • 930 • updated 3.1 years ago by mannoulag1 • 60

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2.6k

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Cdf file problem

R cdf microarray written 5.6 years ago by sam.neaves • 20 • updated 4.0 years ago by fengshugluck • 0

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1.5k

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I can't get the probe location file from metabric

gistic metabric cdf written 6.2 years ago by Avro • 140 • updated 4.9 years ago by Ar Es • 0

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1.3k

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Locating correct CDF file

cdf written 5.7 years ago by susannadowning • 10

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Recent Replies

C: How to find the GC content by Interval by ATpoint ♦ 40k
Please add details. What data do you have, intervals in terms of ranges, or sequence? And in what...
C: How to determine significance of a variant? by nub6 • 0
Thanks that is useful
C: heatmap in R by Hamid Ghaedi • 450
Yes, there is no pattern in your heatmap please reassure about your downstream analysis steps esp...
A: How to determine significance of a variant? by Hamid Ghaedi • 450
A general approach for whole exome sequencing analysis would be something like this: 1- Based on...
C: How to identify which genes are responsible for the different cluster without P by camillab. • 30
I did it but I would like to be able to discriminate between differences across all samples (whic...
C: How to identify which genes are responsible for the different cluster without P by ashish • 540
Is there a specific reason why you do not want to do PCA, it sounds like a good job for PCA. You ...
C: Should discodant alignments be retained in ChIP-Seq experiments? by Sam • 50
These tutorials are indeed single-read. Silly me.
C: problem with a for loop by brunobsouzaa • 330
Oh, now I got it! You can simply remove the intermediate files as soon as they are used (I do thi...
C: How to identify which genes are responsible for the different cluster without P by Jean-Karim Heriche ♦ 23k
To get the clusters, you need to cut the tree generated by hclust, for example with the cutree fu...
C: Change Heatmap Labels from ENSDAR to Gene_Names in correct order by Ksandersen • 10
Hello Friederike Here are the **head(zf_AR)** and some of **str(zf_AR)** result. Let me know if ...
C: Should discodant alignments be retained in ChIP-Seq experiments? by igor ♦ 11k
Do discordant alignments exist in those tutorials? Usually, ChIP-seq experiments are single-read ...
C: How to identify which genes are responsible for the different cluster without P by camillab. • 30
Do I need raw read to use with `DESeq2`, `edgeR` and `limma` right?

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