#algorithmicbioinformatics peeps!

Say, hypothetically, I wanted to test a new read mapper/pairwise aligner for Nanopore reads.

For synthetic reads, what is the length and error-rate I should aim for, and is there a specific tool to simulate Nanopore reads (I'm using pbsim with 10% and 25kb right now, and I'm aware of nanosim, though I'd like to use something simpler, if it exists)?

For real data, what's the most current read set (and reference) people like to use for benchmarking?

Thanks!

A proper #introduction. I'm Camille, a French researcher in #algorithmicbioinformatics . I work on methods for sequencing data analysis (often large scale). Based in CRIStAL lab/Bonsai team in Lille, France.

I am not a CS person in the 1st place as I come from a bioinformatics MSc, so still learning everyday.

I teach and working with undergrads and PhD students is a great source of joy.

I will also soon be a mother of 2. Thus interested in #womeninscience #womeninstem discussions.

#introduction Hi everyone 👋
I'm a French student in computer science, currently finishing my master's degree and hopefully starting a PhD next year!

I'm very interested in graph and sketching algorithms, and their application to #algorithmicbioinformatics

#introduction My name is Barış, I'm from İstanbul, Turkey, and I just started my third year as a PhD student in Computer Science at MIT in the Computation and Biology Group, supervised by Bonnie Berger.

I work in #algorithmicbioinformatics, and interested in developing algorithms and data structures for sequence analysis + indexing, read mapping + alignment, and pan/metagenomics.

I'm a big fan of #Rust, solving Rubik's cubes fast, and producing music in my crappy home studio. Let's connect!