Antibes, France
Joined November 2016
- Tweets29
- Following101
- Followers32
- Likes29
Through our collaboration with @syclopseu 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!
SYCLOPS member, Accelom, will work with other partners to develop #SYCL-GAL. This library will enable open, cross-architecture genome sequencing .
It's just one of the ways SYCLOPS will benefit science and innovation.
See more in this blog from Accelom!
syclops.org/updates/2024/07/…
So proud to be a part of this Horizon Europe project and the amazing consortium @HorizonEU
We're excited to launch the SYCLOPS Project, which brings together 8 leading European organisations to democratize AI acceleration using open standards and enable a healthy, innovation-driven ecosystem.
Read the press release here:
syclops.org/updates/2023/05/…
#SYCL #AI
Nimisha Chaturvedi retweeted
Worldwide population genomics reveal long-term stability of the mitochondrial chromosome composition in a keystone marine plant biorxiv.org/cgi/content/shor… #biorxiv_genomic
Nimisha Chaturvedi retweeted
Recently, we (@nimchat12,@yanlolo1) presented #accelalign, our embedding-based #sequencealigner. Now, we have improved embedding accuracy further (hicomb.org/HiCOMB2022-progra…). Come hear @yanlolo1 present it at #HICOMB @IPDPS today, try it(tinyurl.com/accelalign) & give us feedback.
After a rigorous review cycle, our research on sequence alignment(#AccelAlign) has been published with @SpringerNature in @BMCBioinfo (rdcu.be/ck1HQ). GPU-accel, splicing support, and more coming soon. Please reach out for collaboration/support. @nimchat12 @yanlolo1
So proud and excited to have ACCELOM be a part of this project. Thank you @EURECOM and @Sapienbio2012 for such an amazing collaboration! Looking forward to doing some ground-breaking research on triple-negative breast cancer together eurecom-blog.medium.com/geno…
Nimisha Chaturvedi retweeted
#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/ac…), and reach out for feedback & collab. @nimchat12 @yanlolo1 #sequencealignment #Bioinformatics
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 @SpringerNature in @BMCBioinfo. Reach out for collaboration/support.
After a rigorous review cycle, our research on sequence alignment(#AccelAlign) has been published with @SpringerNature in @BMCBioinfo (rdcu.be/ck1HQ). GPU-accel, splicing support, and more coming soon. Please reach out for collaboration/support. @nimchat12 @yanlolo1
Nimisha Chaturvedi retweeted
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/
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!?!
Nimisha Chaturvedi retweeted
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.
This Post is from an account that no longer exists. Learn more
Nimisha Chaturvedi retweeted
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. xitter.cf/lpachter/status/130686…
There is something deeply flawed with SciPy. The recent @numpy_team paper just published with 26 male authors and 0 women is a symptom. 1/
xitter.cf/numpy_team/status/1306…
Nimisha Chaturvedi retweeted
Accel-Align: A Fast Sequence Mapper and Aligner based on the Seed-Embed-Extend Method biorxiv.org/cgi/content/shor… #bioRxiv
Nimisha Chaturvedi retweeted
Our latest work with @nimchat12 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.
Accel-Align: A Fast Sequence Mapper and Aligner based on the Seed-Embed-Extend Method biorxiv.org/cgi/content/shor… #bioRxiv
Something to think about while we have self-quarantine time on our hands geodisney.blogspot.com/2020/…
Presenting this cool work! Thanks @jacquesfellay 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.42542