Array CGH quality control
Hi everyone,
I am processing a set of array CGH data using fairly standard tools (limma for background correction and normalization, DNAcopy for segmentation).
Some of my samples look quite different in terms of quality by visual inspection. I have included two examples here. I have two questions:
- Do you know of any tools/ protocols to perform QC on array CGH data?
- In your experience, can sample DNA quality result in the existing local trends of variation present in sample 1 but not sample 2?
Thank you!
• 2,042 views
•
link
updated
by
Kevin Blighe
•
written
by
Noushin N
•
written
by
Noushin N
1 answer
• 1 views
•
link
written
by
Kevin Blighe
Log in to answer this question.
More posts like this
-
CONTRA for CNV: lack of output images from CONTRA
written by ogcmail •
-
SPAdes error code -6
written by Lina F
-
Which reference genome for the annotation of the 1KG variant data by snpEff?
written by Nam Le Quang •
-
Creating marker file for GICTIC2
written by zizigolu
-
Quality control issues for mRNA sequencing fastq files based on FastQC, based on Per Base Sequence …
written by svlachavas
-
Same transcript appear on different scaffolds. Why?
written by Kenny •
-
low percentage mapping... tophat2.1.1
written by mra8187 •
-
extract a table a subset from table
written by Bioiris •
-
PAML input file format
written by The Last Word
-
Illumina Chip-seq run failing Kmer content module in FastQC
written by James Ashmore
