Is BETA suitable for plant research? · Biostar

This is a test version of Biostars. For the public version, visit https://www.biostars.org.

Is BETA suitable for plant research?

The only one existed tool to do the RNA-seq and Chip-seq joint analysis is BETA.And I wonder if BETA can used in Plant research. Because I read the paper, it mentioned that BETA is used in mammalian genomes.Does it means that it cannot used in other species ? like plant? Any ideas? Thanks in advance!

beta chip-seq rna-seq

• 1,087 views • link

updated 6.9 years ago by Biostar

• written 7.0 years ago by harrypotterandsbt

Hi! I have the same doubts as you, did you finally solve it?

• 0 views • link

written 6.3 years ago by kindisha_blue4 •

0 answers

No answers yet.

Log in to answer this question.

More posts like this

How to do Binding and Expression Target Analysis?
written 3.5 years ago by Dan •

Hello I used [BETA](https://github.com/hanfeisun/BETA) to infer direct target genes from ChIP-seq peaks. Can someone help to let me know what is wrong with the program? …
ChIP-seq correlation with CNS
written 5.2 years ago by buffealo •

Hello, I wonder if it is possible to display ChIP - seq data as CNV graph. Maybe there is a tool or a method/software to …
Data integration tools for multi-omics sequencing data
written 5.5 years ago by marina.v.yurieva

I was wondering what are the best tools used for sequencing data integration? What I have is multiple bulk RNA-seq, scRNA-seq, ATAC-seq, scATAC-seq, Hi-C and …
Is there any other tool to analysis Target gene based on Chip-seq and RNA-seq joint analysis result
written 7.1 years ago by harrypotterandsbt

I know there is a tool called BETA can analysis and predict target gene based on RNA-seq and ChIP-seq datasets. And I wonder there are …
How to select high quality RNA-seq datasets from SRA database?
written 7.4 years ago by harrypotterandsbt

Hi everyone. I have a question about how to find useful datasets from SRA database. I want to built a plant database from RNAs-seq data. …
ssRNA-seq:Why saying ignoring the orientation of transcription leads to an overestimation of expres…
written 7.5 years ago by harrypotterandsbt

Hello everyone ,It 's my first question in biostars. Recently I was annoyed by a question about ssRNA-seq library preparation. there are two question : …
Integration of Chip-seq and RNA-Seq data
written 7.7 years ago by anu014

Hello Biostars, Hope you all are doing well! Can someone suggest me any tool other than BETA to integrate RNA-Seq data (from cuffdiff) and Chip-seq …
Explanation of BETA output
written 9.0 years ago by benjyrolls

Hello, I have an RNA-Seq experiment( OCT4 KO vs WT mouse) and ChIP-Seq experiment ( WT vs OCT4 enriched ChIP sample). I have analysed my …
When is recommended to remove or keep Unpaired "Orphan" reads in downstream analysis?
written 10.3 years ago by fernardo

Hi all, In NGS, after alignment, **SAM** and **BAM** files contain reads (**paired** and **unpaired**). I wonder when is better to keep the unpaired (**orphaned**) …
Can Soap2 Be Used For Rna-Seq Analysis
written 14.7 years ago by Wligtenberg •

<p>Hi,</p> <p>I want to re-analyse results of RNA-seq data. Previously, they have been analysed using SOAP2 and an old reference genome. When I contacted the …