Similar posts • Search »

• DNA Methylation Error
  Hello All: I was running ChAMP pipeline for DNA methylation and came across this error: Error ...
• Champ issues: norm() and combat()
  I really appreciate your time and valuable inputs! **My issues while using Champ Bioconductor pa...
• Error while using ChAMP
  Hello All, I am using ChAMP do run a methylation analysis on the 450k dataset. I am not running ...
• ChAMP probe.features displays only CHR and MAPINFO, and it entails epic data, whereas probe.features.epic does not exist
  Hi, I updated R and Bioconductor to use the new ChAMP package for EPIC arrays. In contrast to wh...
• Memory allocation problems in 450k analysis
  I have 75 samples' data downloaded from TCGA. While running some of the steps in the pipelines li...
• 450K - ChAMP : How to analyse 5-hmc data ?
  Hi, I've a bunch of files (20 samples divided in two groups: untreated vs treated). For each sam...
• What is the meaning of Bumphunter output?
  I tried using ChAMP to analyze differential Methylation Regions (DMR).[ChAMP][1] The method I use...
• ChAMP ebGSEA error
  Hello, I have been running the ebGSEA method for my methylation samples and it works fine with a...
• Some packages are not working in the latest version of Bioconductor
  Hi Guys I am new to R and I have recently downloaded the latest version of R and bioconductor. M...
• how to merge the DNA_methylation data downloaded for GDC database
  I have downloaded the TCGA DNA methylation data by gdc_glient. The data is too large, and I have...
• Is it possible to controlling for variables in ChAMP or any methylation package
  Hello all, I have an epic data from one study that I want to use as my control and the other from...
• Does it make sense to use methylation data for GESA
  I came across [ChAMP][1] which analyzes methylation data using GSEA. I know that DNA methylation ...
• segmentation fault (core dumped) error when using BWA and BOWTIE
  hi everyone i got segmentation fault (core dumped) error when using BWA (mem) and BOWTIE (index)...
• Error with bcftools
  I tried to run the following command and got an error stating bcftools: ccall.c:237: update_bcf1:...
• I can't run ChAMP in R 3.6.3
  I change my HD for a SSD, rebooted my PC (x64, i5, 8gb RAM) and installed R 3.6.3, R tools and Rs...
• Segmentation fault (core dumped) #augustus
  Hiii...augustus has stopped working by showing the following error. How do I fix this? .Pleas...
• segmentation fault (core dumped) in IGBlast
  I'm analyzing antibodies and I'm using IGBlastn standalone for it. I have created my own database...
• MAPINFO from probe.feature in CHAMP package different from CpG position in UCSC
  Hi everyone, I just went through my coding to map the CpG ( to their location on the genome usi...
• TargetP giving error on Linux system
  when I run targetp, I am getting the core dumped error. > apparent state: unit 3 named HOWLIN...