Charlotte Darby

Computational Biologist, @TakedaOncology / PhD @JHUCompSci / Alum @CMUCompBio

[Charlotte Darby @ChaDarby]

Looking forward to learning and networking at #BioIT23 in Boston this week!

[Charlotte Darby @ChaDarby]

Thrilled to see this project I contributed to go live! Azimuth is a Shiny app that automates fast integrative analysis of our newly released PBMC reference atlas with a dataset you upload, using new algorithms available in Seurat v4. Try it out: https://t.co/pGajcOlAAL

[Rahul Satija @satijalab]

Tired of manually clustering and annotating your scRNA-seq data?

Try Azimuth, which uses our PBMC reference (https://t.co/ReUhg0mxdb) to automate visualization, annotation and biomarker discovery. Just upload a counts matrix at https://t.co/LwAGzuVEqZ

https://t.co/tVOEf3hp57

[Rahul Satija @satijalab]

We are excited to release:
* Our new preprint on weighted nearest neighbor analysis to define cell states based on multiple modalities in Seurat v4
* A multimodal CITE-seq dataset of human PBMC w/200k cells and 228 antibodies
https://t.co/ReUhg04VOB
Data/code are available now!

[Charlotte Darby @ChaDarby]

@BenLangmead @alexisjbattle @chophshiy This sounds so much like my homeschool experience (minus iPad of course), I haven’t thought about Cuisenaire rods in many years ��

[Michael Schatz @mike_schatz]

Excited to announce "Vargas: Heuristic-free alignment for assessing linear and graph read aligners" with @ChaDarby @BenLangmead and Ravi Gaddipati. Highly parallel vectorized DP lets us compute truly optimal alignments for short reads https://t.co/6BHHldGvoC

[Charlotte Darby @ChaDarby]

@ericweimer @ambarrio @IanFiddes @10xGenomics Although we did not explore it, the ideas could probably be extended easily to use two sets of genotypes instead of one. Thank you for the suggestion!

[Charlotte Darby @ChaDarby]

Presenting scHLAcount: HLA allele-specific and cell-type specific expression at the same time with single-cell gene expression data! Internship project with @ambarrio @IanFiddes at @10xGenomics
https://t.co/tPtwcxkWCu

[Charlotte Darby @ChaDarby]

@ambarrio @IanFiddes @10xGenomics Learned so much this summer about single-cell technology, industry, Rust programming - thanks to @mike_schatz @BenLangmead for their support of me taking this internship

[Charlotte Darby @ChaDarby]

@drjtwit @edXOnline MIT 6.00x

[Charlotte Darby @ChaDarby]

@aaronquinlan Sounds like a SIGBOVIK https://t.co/XXdD7lt0Ye paper a la this attempt to create a string that contains all English words! https://t.co/W3U0ZvkWn5

[Michael Schatz @mike_schatz]

Samovar: Single-sample mosaic single-nucleotide variant calling with linked reads. Great work with @ChaDarby @BenLangmead et al. https://t.co/9fcuxxaNQH @10xGenomics

[Charlotte Darby @ChaDarby]

Thanks, Mike!

[Michael Schatz @mike_schatz]

Awesome talk @ChaDarby!

[iScience journal @iScience_CP]

Samovar : mosaic mutations calling with linked reads from @ChaDarby @mike_schatz soon out in @iScience_CP

[Charlotte Darby @ChaDarby]

@PhillipCompeau @ckingsford @CMUCompBio @SCSatCMU Get ‘em hooked early! What a great addition to a stellar curriculum for CS and CB undergraduates.

[Charlotte Darby @ChaDarby]

Excited to learn and network today at the #WomenInSTEMSymposium today with @JHUWOW ! 👩‍🔬

[Michael Schatz @mike_schatz]

Introducing Samovar: Single-sample mosaic SNV calling with linked reads. Accuracy rivaling tumor-normal pairs but from a single sample. Great work by @ChaDarby https://t.co/SpHXfC5kqX @10xGenomics @linkedreads

[JHU Computer Science @JHUCompSci]

Hopkins Engineers Attend Grad Cohort Workshop: https://t.co/T5V3PQu2Pw #FlashbackFriday #HopkinsEngineer

[Charlotte Darby @ChaDarby]

We JHU ladies appreciate @JHUCompSci support of this weekend’s #GradCohort2018 workshop by @CRAWomen - it’s been an amazing networking opportunity with inspiring stories from peers and mentors.

[Charlotte Darby @ChaDarby]

On my way to #GradCohort2018 with @CRAWomen in SF! Looking forward to networking and gaining inspiration from women colleagues in computing this weekend.

[Michael Schatz @mike_schatz]

New paper in press today at @NatureRevGenet: Piercing the dark matter: bioinformatics of long-range sequencing and mapping https://t.co/58xKPpfMab. Summarizes all the major ways long reads, linked reads, HiC and Optical Mapping are being used to advance genomics