Data for Pairwise Sequence Alignment
What is the most convenient data set on NCBI to get the data which will be used for running a tool designed for pairwise sequencing?
Tool is going to be product of a team composed of three undergraduate students majoring in computer science and focusing on bioinformatics.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Job: PhD Scholarship in Bioinformatics and Liver Cancer Genomics
written by waihungh •
-
Job: Postgraduate Scholarship in Bioinformatics and Liver Cancer Genomics
written by waihungh •
-
Forum: If I want to learn bioinformatics as a computer scientist, would it help to learn Data scien…
written by bianca.iii99 •
-
Forum: Introduction to Bioinformatics - Introductory Online Courses in Transcriptomics, Genomics, E…
written by elia.brodsky
-
Job: Postgraduate students in bioinformatics and liver cancer
written by waihungh •
-
Job: A PhD Position in Bioinformatics Immediately Available at the University of South Dakota, Verm…
written by erliang.zeng •
-
Job: Scientific Support Analyst, University of Chicago
written by Danielle
-
Job: A PhD Position in Bioinformatics Available at the University of South Dakota
written by erliang.zeng •
-
Job: Seeking Bioinformatics Specialist
written by don •
-
Job: PhD Positions in Bioinformatics Available at the University of South Dakota
written by zerliang •
What is a pairwise alignment sequencing? Work on your terms knowledge
Probably you want to benchmark the software that you are going to write. For that you will at first probably run simulation (generating reads from reference genome). So that you know where your reads originally came from. Now is the question which genome (ploidy level, complexity - repeats) and which technology (Illumina, 454, Ion Torrent, PacBio, Solid, ON, so on).
I don't know how much understanding you have, but if you want to write a pairwise aligner, it won't work like standard BWA. It should target shorter reference sequences (not whole genome, but let's say a list of gene sequences). It's actually underappreciated part of alignment software, which can be pretty useful for that design.