Jared Simpson

@jaredtsimpson

Computational Biologist. Principal Investigator at OICR & Assistant Professor .

simpsonlab.github.io
Bergabung September 2009
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  1. me-Retweet
    4 Des

    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 balasan 86 retweet 174 suka
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  2. me-Retweet
    28 Nov

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

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  3. me-Retweet
    28 Nov

    lab with a beautiful paper:

    3 retweet 1 suka
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  4. me-Retweet
    26 Nov

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

    18 retweet 28 suka
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  5. me-Retweet
    12 Nov

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

    3 balasan 98 retweet 165 suka
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  6. me-Retweet
    23 Okt

    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 balasan 211 retweet 342 suka
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  7. me-Retweet
    21 Okt

    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 balasan 56 retweet 28 suka
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  8. me-Retweet
    18 Okt

    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 balasan 18 retweet 38 suka
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  9. me-Retweet
    18 Okt

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

    9 retweet 14 suka
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  10. me-Retweet
    16 Okt

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

    3 balasan 34 retweet 53 suka
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  11. 16 Okt

    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 balasan 34 retweet 54 suka
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  12. me-Retweet
    15 Okt

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

    3 balasan 12 retweet 29 suka
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  13. 11 Sep

    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 balasan 90 retweet 158 suka
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  14. me-Retweet
    3 Agt

    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 balasan 54 retweet 159 suka
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  15. 25 Jul

    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 balasan 69 retweet 106 suka
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  16. me-Retweet
    24 Jul

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

    2 balasan 38 retweet 90 suka
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  17. me-Retweet
    20 Jul

    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 suka
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  18. me-Retweet
    20 Jul

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

    Backend Developer - CanDIG -
    1 balasan 3 retweet 7 suka
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  19. me-Retweet
    8 Jul

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

    2 balasan 14 retweet 29 suka
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  20. me-Retweet
    5 Jul

    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 balasan 16 retweet 28 suka
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