All things bioinformatics at Fulcrum Genomics
Seattle, WA
Joined August 2014
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From now until February 23rd, I will be climbing Mt. Kilimanjaro in Tanzania, Africa with 20+ biotech execs to raise $1M+ for cancer research and patient care at the @fredhutch .
Thanks to everyone for supporting me, the team, and cancer research!
clintclimbsforcancer.com/
Climbing a mountain (literally) for cancer research! Learn about TwinStrand’s VP of Data Science, @clintcodesbio, and his efforts to fight cancer:
hubs.li/Q01B7lT60
Natural sample grouping in MultiQC.
Love to see it.
📢 Exciting updates from the MultiQC team at Seqera!
We have been working hard to enhance the functionality and performance of @MultiQC, and are excited to introduce key new features.
Learn more: hubs.la/Q02TCp730
#MultiQC #SampleGrouping #CustomScripts
Clint Valentine retweeted
Hello to all #bioinformatics #rustlang,
I often copy code to generate data when writing tests. After 3 or 4 times, I got fed up and created biotest crates.
biotest can generate fasta, fastq and vcf, I'm open to any suggestion, feedback or contribution.
github.com/natir/biotest
Clint Valentine retweeted
Most cells in your body do not have DNA / genomes.
~ 90 % do not have DNA.
~ 10 % have DNA
This is a remarkable and necessary tool for the Nextflow community. So excited to see the developer experience get better! Now we can stop worrying about code style and get to workflow-making!
So excited to announce @AMeynert has joined the @fulcrumgenomics team!
This Post is from an account that no longer exists. Learn more
Clint Valentine retweeted
Two other resources of note for IGV:
- Interactive guide to getting started with IGV:
sandbox.bio/tutorials/igv-in…
- The supplement to this article, which is an incredibly comprehensive visual guide to reviewing somatic variants: ncbi.nlm.nih.gov/pmc/article…
A key skill in bioinfo is assessment of raw seq data. Tools like IGV are useful to view aligned reads & variants. I've manually reviewed 1000s of variants and it's worth knowing what a real variant looks like! From Sirisha in the @nanopore #EPI2ME team:
labs.epi2me.io/reviewing-bam
Clint Valentine retweeted
A key skill in bioinfo is assessment of raw seq data. Tools like IGV are useful to view aligned reads & variants. I've manually reviewed 1000s of variants and it's worth knowing what a real variant looks like! From Sirisha in the @nanopore #EPI2ME team:
labs.epi2me.io/reviewing-bam
Fascinating blog post on the physics of flight with addicting interactive simulations!
ciechanow.ski/airfoil/
10x can't possibly sue Singular over spatial sequencing since Singular's doing spacial (outer space!) sequencing instead. Heavy coin too. Maybe I got an ultra-rare misprint? #AGBT
Waking up early at AGBT is always a challenge, but the technology breakfasts have been a great way to learn more details about all the fancy stuff in pre-release.
This morning is @SingularGenomic's teaser for a spatial sequencer: G4X.
Clint Valentine retweeted
The theme of #AGBT24 so far has been amazing molecular biology and technological innovations that solve problems previously requiring #Bioinformatics solutions.
Clint Valentine retweeted
We are excited to launch the UG 100™ with substantial improvements in indel accuracy, achieving a 99.4% INDEL F1 score and unveiling our new ppmSeq™ technology, capable of achieving 1 in 1,000,000 raw read error rates for SNVs, or Q60-level precision.
businesswire.com/news/home/2…
Today I learned essentially all RNAs including those that are long non-coding (lnc) form secondary structures. Sean Eddy of Harvard asks if lncRNA has functional evolutionary conserved structure at all?
Sean Eddy and team developed an algorithm for testing if a lncRNA has conserved secondary structure. Fewer lncRNAs than you would think do.
