Jared Simpson

@jaredtsimpson

Computational Biologist. Principal Investigator at OICR & Assistant Professor .

simpsonlab.github.io
Sumali noong Setyembre 2009
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    Dis 4

    Our preprint introducing >300 Gbp sequencing of microbial community standards is up! Of interest to anyone looking for juicy real data to put tools to the test. Amazing lab work & nice first paper with lab

    4 mga sagot 86 mga retweet 174 (na) gusto
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    Nob 28

    Now available from : and with colleagues including and measured over 1,000,000,000 Cas9 editing outcomes, and thoroughly dissected the data. 1/

    5 sagot 49 mga retweet 94 (na) gusto
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    Nob 28

    lab with a beautiful paper:

    3 retweet 1 gusto
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    Nob 26

    High-Throughput Biology: From Sequence to Networks, 6-day course w/. Applications due 1/15. Instructors:

    18 retweet 28 gusto
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    Nob 12

    Announcing a first release of methplotlib: a genome browser for methylation data from nanopolish by . Feedback and contributions more than welcome!

    3 sagot 98 retweet 165 gusto
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    Okt 23

    Interested in a long-read assembler with the speed of miniasm and comparable consensus accuracy of canu? Try wtdbg2 by my friend Jue Ruan. A human genome in one day. Also available from bioconda.

    9 mga sagot 211 retweet 342 gusto
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    Okt 21

    TT position available at U of Toronto in genomics and statistical genetics. Great community and colleagues here in Toronto. Potential opportunities for a link with . Please RT

    1 sagot 56 mga retweet 28 gusto
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    Okt 18

    I think this'll be our best promethion run so far! It just blew past 75Gb in 24hours with >2100 pores still sequencing and >96% pore occupancy

    1 sagot 18 retweet 38 gusto
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  9. Ni-retweet ni
    Okt 18

    Sooo good! Using long-read sequencing to detect imprinted DNA methylation

    9 mga retweet 14 (na) gusto
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    Okt 16

    D-NAscent: dynamics by sequencing reveals on single-molecules replication origins, fork direction & fork pausing. Great collaboration

    3 sagot 34 mga retweet 53 gusto
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  11. Okt 16

    We just posted a preprint on measuring genome replication by detecting nucleotide analogues incorporated into the yeast genome using signals. Work led by , and .

    1 sagot 34 mga retweet 54 (na) gusto
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    Okt 15

    Never imagined that the malloc in glibc affects the multithreaded performance by this much! :o Impact of malloc on call-methylation performance ...

    3 sagot 12 retweet 29 (na) gusto
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  13. Set 11

    New nanopolish release (0.10.2) containing the first public version of our poly-A tail length estimator for direct RNA reads: . Developed by Paul Tang in my group.

    3 sagot 90 retweet 158 gusto
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    Ago 3

    130.6 Gb from our first PromethION flowcell... The most exciting moment was realising we still had 7000 pores after 64 hours so fuelled it up and kicked it off again!

    15 sagot 54 mga retweet 159 (na) gusto
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  15. Hul 25

    nanopolish v0.10.1 released: this version changes the interface of the consensus polishing workflow so some pipelines may need to be updated. See the release notes here:

    1 sagot 69 mga retweet 106 (na) gusto
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    Hul 24

    Slides from my talk on "k-mer Data Structures" at :

    2 sagot 38 retweet 90 gusto
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    Hul 20

    Received a nice NanoPlot feature suggestion from : evolution of sequencing speed across time. Here is an example of one of our PromethION runs. Available in v1.15.0 from PyPI

    12 retweet 36 (na) gusto
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    Hul 20

    Come work with us and help build the foundation for a Canadian approach to national genomics research!

    Backend Developer - CanDIG -
    1 sagot 3 retweet 7 gusto
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    Hul 8

    Week end fun : Ecoli consensus and chr22 methylation detection using on my mobile phone for some reads (Includes minimap2 and samtools).

    2 sagot 14 mga retweet 29 (na) gusto
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    Hul 5

    Meet us at : talks on diploid assembly () and on using Strand-seq to sort long reads by chromosome prior to assembly (). Two posters: sequence-to-graph alignment and haplotype phasing. Also, we are LOOKING FOR POSTDOCS.

    1 sagot 16 mga retweet 28 gusto
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