Tweet
Best Aligner for Duplicated Sequences
I'm looking around for some input from fellow SEQers. I'm experimenting with different aligners. I'm looking for an aligner that does a good job of correctly mapping reads from duplicated sequences, while at the same time is used fairly commonly. I am already looking into bwa, bowtie, and snap, but I would like to add one more to the list. Any suggestions? Would novoalign or stampy be good choices?
-
-
i think you should change the query to aligner for multiply mapped reads!
most aligners you mention have different options to select multiply mapped reads, so it might end up being multiple options from the same tool as well...--
bioinfosm -
Thanks bioinfosm! I'll look into that. Do you have any experience with stampy or novoalign?Comment
-
Comment
-
The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...Yesterday, 07:48 AM -
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...04-22-2024, 07:01 AM
Comment