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
-
Cancer research has been transformed through numerous molecular techniques, with RNA sequencing (RNA-seq) playing a crucial role in understanding the complexity of the disease. Maša Ivin, Ph.D., Scientific Writer at Lexogen, and Yvonne Goepel Ph.D., Product Manager at Lexogen, remarked that “The high-throughput nature of RNA-seq allows for rapid profiling and deep exploration of the transcriptome.” They emphasized its indispensable role in cancer research, aiding in biomarker...09-07-2023, 11:15 PM -
Ribonucleic acid (RNA) represents a range of diverse molecules that play a crucial role in many cellular processes. From serving as a protein template to regulating genes, the complex processes involving RNA make it a focal point of study for many scientists. This article will spotlight various methods scientists have developed to investigate different RNA subtypes and the broader transcriptome.
Whole Transcriptome RNA-seq
Whole transcriptome sequencing...08-31-2023, 11:07 AM
Comment