Presenting this cool work! Thanks Jacques Fellay and the team for such a fruitful collaboration. Adaptation of hepatitis C virus to interferon lambda polymorphism across multiple viral genotypes doi.org/10.7554/eLife.…

Very interesting ted video on imposter syndrome ted.com/talks/elizabet…

Something to think about while we have self-quarantine time on our hands geodisney.blogspot.com/2020/03/the-me…

Thought provoking geodisney.blogspot.com/2020/03/this-i…

Accel-Align: A Fast Sequence Mapper and Aligner based on the Seed-Embed-Extend Method biorxiv.org/cgi/content/sh… #bioRxiv

Our latest work with Nimisha Chaturvedi on randomized low distortion embedding for sequence alignment is out. We introduce seed-embed-extend, a new design method, and show that an SEE aligner can provide 10x reduction in exec. time over bwa and bowtie2 without any special hardware.

So I wrote a thread about the lack of representation of women on the SciPy and NumPy papers, and the implications thereof. In return I was blocked by one of the core developers. This is not how one builds open source communities. x.com/lpachter/statu…

For most academics, funding comes via collab, which happens when you are well known in your field, which happens when you have solid publications, which often requires a team of PhDs and postdocs, which in turn requires funding. We need initiatives like these to #breakthecycle.

As if Covid19 anxiety wasn't enough for this year! #Elections2020

Short horror story: Your work describes a pipeline to analyze triple negative breast cancer and ovarian cancer data. Reviewer comes back with a comment: How are you going to account for gender bias? What!?!

Dear Colleagues, The situation in India is haertbreaking. My friends from Delhi, and former advisor at Princeton (CDDEP) are working round the clock to help bring OXYGEN to those who need it. If you can donate: oxygenforindia.org

If you are looking for a WGS/exomeseq aligner that is 10x faster than bwa/bowtie2 on just CPUs with a low memory footprint consider #AccelAlign, open source, dockerized, ready to use, now published with Springer Nature in @BMCBioinfo. Reach out for collaboration/support.

Nailed it!

#recombseq2021 just kicked off with amazing attendance! Awesome program! Super excited to talk about #AccelAlign (rdcu.be/ck1HQ). Please check it out (github.com/raja-appuswamy…), and reach out for feedback & collab. Nimisha Chaturvedi yanlolo #sequencealignment #Bioinformatics

Some of promising short-read mappers this year: accel-align, chromap, dragmap and snap v2. Short-read mapping is not solved yet.

So proud and excited to have ACCELOM be a part of this project. Thank you La Com EURECOM and Sapien Biosciences Pvt Ltd for such an amazing collaboration! Looking forward to doing some ground-breaking research on triple-negative breast cancer together eurecom-blog.medium.com/genomics-analy…

Recently, we (Nimisha Chaturvedi,yanlolo) presented #accelalign, our embedding-based #sequencealigner. Now, we have improved embedding accuracy further (hicomb.org/HiCOMB2022-pro…). Come hear yanlolo present it at #HICOMB IPDPS today, try it(tinyurl.com/accelalign) & give us feedback.

Worldwide population genomics reveal long-term stability of the mitochondrial chromosome composition in a keystone marine plant biorxiv.org/cgi/content/sh… #biorxiv_genomic

So proud to be a part of this Horizon Europe project and the amazing consortium Horizon Europe 🇪🇺

Through our collaboration with SYCLOPS Project partners, we are in the process of developing and validating a fully open , accelerated secondary genomic analysis pipeline. A short blog for now. More updates to follow next year. Stay tuned!