Hi all,
I am a newbie to bioinformatics and this forum. Hopefully I am posting my question in a proper way.
I am currently running tophat, splicemap and mapsplice on a set of RNA-seq data, I would like to know the following matters:
1. Is there any easy-to-use tools to trim a RNA-seq file into a shorter read-length one? I made a search on the internet and found that perl seems to be one of the solution. Since I haven't learned perl before, I wonder if there are any other tools which are easier to use.
2. After running the splice-junction tools, I want to compare the overlap of their results. I made a search and a webiste suggests I can use Rsamtools and GenomicRanges
packages of R software to do so. Is it an easy and common way to compare splice-junction tools results?
As long as the tool is easy to use, it is fine for me.
Thank you very much
-
Spatial biology is an exciting field that encompasses a wide range of techniques and technologies aimed at mapping the organization and interactions of various biomolecules in their native environments. As this area of research progresses, new tools and methodologies are being introduced, accompanied by efforts to establish benchmarking standards and drive technological innovation.
3D Genomics
While spatial biology often involves studying proteins and RNAs in their...01-01-2025, 07:30 PM -
Many organizations study rare diseases, but few have a mission as impactful as Rady Children’s Institute for Genomic Medicine (RCIGM). “We are all about changing outcomes for children,” explained Dr. Stephen Kingsmore, President and CEO of the group. The institute’s initial goal was to provide rapid diagnoses for critically ill children and shorten their diagnostic odyssey, a term used to describe the long and arduous process it takes patients to obtain an accurate...12-16-2024, 07:57 AM