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@ChengChhy from my group developed hifiasm, a new#Hifireads assembler that preserves local phasing. Human asm in 1/2 day. Tested on non-humans. Comparable asm quality to others. Features in plan: consistent primary asm & global phasing. Feedback welcomed! http://github.com/chhylp123/hifiasm … -
@PacBio PSA! HiFi = library prep & data type CCS = sequencing mode & read consensus analysis So, we'd say “I made a HiFi library, sequenced it in CCS mode, and ran the raw data through CCS analysis to get my#HiFireads for variant calling”. You’re welcome.
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Awesome collaboration with Shilpa Garg
@lh3lh3@infoecho@MedhatHelmy7 and many others. Really the next level of fast and automated diploid human assemblies. Requiring#HiFireads@Pacbio and Hi-C reads. Awesome talk yesterday#ASHG19 .@BCM_HGSChttps://www.biorxiv.org/content/10.1101/810341v1 … -
Using the price list from
@uwgenome (a@PacBio CSP), a#HiFiReads library prep and 30 hr Sequel II movie comes in right about $5000 for an external researcher. Arabidopsis can be run 5-7-plex, for a comparable or lower cost per sample https://pacbio.gs.washington.edu/?utm_source=Website&utm_medium=CSP-Referral&utm_campaign=title-link … -
Evan Eichler talking about
@PacBio HiFi reads at AGTA2019. Game changer!#millenniumscience#agta19#pacbio#hifi#hifireads pic.twitter.com/UmdG8u6aB4
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And the
#HiFiReads make assemblies this large easier than ever. The bulk of the computation is the CCS job, which scales linearly with genome size and coverage. That replaces a massive preassembly job, which scales quadratically. -
Yep, definitely polish any CLR or ONT assembly, but it sure is nice to get it right the first time (and save a bunch of time, effort, and money) if you can design your experiment to use
#HiFiReads. -
Happy to see there’s a new version of canu for
@PacBio#HiFireads by@sergekoren et al. That’s three new genome assemblers announced during#PAGXXVIII. Hifi assembly is a game changer for genomics. -
Oooh, want to put
#HiFiReads up against regular long read data in a human, an animal, and a plant? https://twitter.com/drsarahdoom/status/1162109582774165504 … -
Haplotype Diversity and Sequence Heterogeneity of Human Telomeres https://www.biorxiv.org/content/10.1101/2020.01.31.929307v1 … great preprint by
@LankyCyril@jfoox from@mason_lab using@PacBio#HiFiReads -
Exciting new study by
@JullienFlynn@AndyClarkCornel@10BPQ_Oryza resolving tandem repeats for evolutionary dynamics in Drosophila virilis. >40% of genome is a few related 7 bp satellites. No systematic errors in satellite sequences using#HiFiReads: https://academic.oup.com/mbe/advance-article-abstract/doi/10.1093/molbev/msaa010/5711298 …pic.twitter.com/2MFJEOa1F2
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What assembler? Not sure there's a real solution outside of even more compute power with the data you have, unfortunately. You've come across one of the big advantages of
#HiFiReads, though. They let you swap the expensive preassembly calculation for a much more modest CCS job. -
@PacBio High Accuracy Long Reads open up new unexplored regions of the human genome: "We find that long telomeric stretches can be accurately captured with long-read [PacBio HiFi] sequencing". One step closer to Telomere-to-Telomere de novo assembly!#HiFiReads@GenomeInABottlehttps://twitter.com/biorxivpreprint/status/1223509988188004352 … -
Registration is now open for
#SMRTLeiden - April 28-30. Join us,@LUMC_Leiden & the SMRT community for three days of engaging science & networking in the Netherlands. Featuring:#HiFiReads#SV#IsoSeq#SMRTInformatics Preview agenda & register: http://ow.ly/JN7D50yaI4W pic.twitter.com/9lvoIS9GeG
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Bonjour,
#Assisesdegenetique! Inspired by what you've heard so far? Learn more about#HiFiReads on the new Sequel II System could accelerate your#biomedical research: http://ow.ly/2e3150xY4TY Or stop by and say hello to Deborah, Nicolas, Gerrit, Jonathan, et Eve!pic.twitter.com/qvda7xmSsv
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Check out the blog summary of this recent preprint featuring fully phased human genome assemblies w/o trio sequencing: Strand-seq +
#HiFiReads http://ow.ly/OH8i50xOKVd@tobiasmarschalhttps://twitter.com/Magdoll/status/1217578522304077826 …
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ICYMI - a great presentation from
@sergekoren at#PAGXXVIII on the latest version of his Canu genome assembler, now optimized for PacBio#HiFiReads: HiCanu https://twitter.com/sergekoren/status/1217547604738732032 … -
What’s the future of
@GoogleHealth deep variant? Cohort calling! Thanks@acarroll_ATG#PAGXXVIII#HiFiReads -
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@acarroll_ATG shows that@PacBio#HiFiReads and@Google deep variant out performs GATK and bwa-men for single nucleotide variants.#PAGXXVIII
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