How to retrieve TSS data from CAGEr?
Hi, While using CageR to analyse TSS data, how do you get TSS data peaks with the gene names? How to process files to get there?
tss
cager
• 1,512 views
•
link
written
by
111220410 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
How to get a list of gene names from macs2 peaks
written by Daniel •Hello, I have a fairly straightforward question that is surprisingly difficult to answer (or find relevant content) online. I have used macs2 to call peaks …
-
How to do the peak calling for introns?
written by PK •Hi all, I have to analyse the clip-seq data. i have mapped all the file and i have to do the peakcalling. The issue what …
-
Heatmap for ChIP-seq data
written by Marco Pannone •Hello everybody! I have some data from ChIP-seq analysis, I have performed peak calling and I have annotated the peaks to the nearby genes. So …
-
Using CAGEr Bioconductor R package
written by Waly •Hi everyone, I'm trying to use CAGEr offered via Bioconductor https://bioconductor.org/packages/devel/bioc/manuals/CAGEr/man/CAGEr.pdf I face issues trying to load my .bam files to R, after forging the …
-
Microarray data analysis pipeline
written by smrutimayipanda •I want to analyse microarray data in R language. I have .txt files taken from NCBI GEO database. I have gone through different sites which …
-
Are MACS2's summit or DiffBind's summit options are recommended for histone marks like H3K4me3, H3K…
written by ResearcherHi All I have used MACS2 for the peak calling with no summit at the default settings and then used Diffbind to call differential peak …
-
How to Analyze Overlapping Peaks of ChIP-Seq Data using Perl Programming
written by genomics_student •I have already obtained a narrow peak file of my mouse sample using macs2. Next, I want to analyze now the overlapping peaks between my …
-
Diamond annotation versus Kallisto/Sleuth
written by BioBingHi all Annotation Experts out there, Currently, I am working with differential gene expression in a non-model organism. For this, I have used Kallisto/Sleuth and …
-
options for RNA polymerase II-chipseq data using macs2 callpeak
written by chenzizhen01 •I'm dealing with RNApolyII chipseq data using MACS2. RNApolyII chipseq data contains two kinds of peaks:narrow peaks at TSS region and broad peaks across genebody. …
-
How To Analyse Epigenetics Data Using Bioinformatics Tools?
written by Mandar •<p>How to analyse epigenetics data using bioinformatics tools? can anybody tell me where can I get the epigenomic data like DNA methylome? any database? </p> …