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Prikvačeni tweet
Together with
@boti_ka Philip L James @dan_turnez and@pashadag, we developed a method to correct@nanopore cDNA transcriptome reads without reference. We achieve an accuracy of 98.7-99.5%.(https://biorxiv.org/cgi/content/short/2020.01.07.897512v1 …) 1/5Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Kristoffer Sahlin proslijedio/la je Tweet
Having fun clustering and error-correcting long cDNA-reads with
#isONclust and#isONcorrect and admiring the clusters in#AliView. This cluster has 14k reads. Pretty neat.@krsahlin@OlgaVPettersson@OWallermanpic.twitter.com/5vDZ0cJ7qT
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Kristoffer Sahlin proslijedio/la je Tweet
Pre-print on the evolution of great ape Y chromosomes, by
@biomonika,@rahul_vegesna, and other colleagues & friends from the@MakovaLab &@pashadag group. Great work, all!
https://twitter.com/biorxiv_evobio/status/1219995610729807873 …Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Excellent collaboration during my short postdoc in the algorithm-and-data-structure wizard
@veli_makinen’s lab. Happy that I went there and learned a lot in such a short time.https://twitter.com/veli_makinen/status/1219889367315025920 …Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Kristoffer Sahlin proslijedio/la je Tweet
Theory part of our work with Kristoffer Sahlin
@krsahlin out: https://arxiv.org/abs/2001.06864Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Kristoffer Sahlin proslijedio/la je Tweet
We are looking for a junior (wet-lab) and a computational postdoc to join our team studying
#RNA metabolism@scilifelab@MTC_KI#Karolinska#Stockholm Research Assistant (8th Feb): http://pelechanolab.com/2020/01/14/open-position-of-a-postdoctoral-fellow-in-computational-biology/ … Computational postdoc (29th Feb): http://pelechanolab.com/2020/01/14/opening-for-a-research-assistant-in-genomics/ … Please RTpic.twitter.com/JW7mlIG7IA
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Kristoffer Sahlin proslijedio/la je Tweet
Only, one week left until the RECOMB-Seq 2020 paper submission deadline (Jan. 20): https://www.recomb2020.org/recomb-seq-satellites … !
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Kristoffer Sahlin proslijedio/la je Tweet
I wanted to add that IsONcorrect, our error correction tool for
@nanopore cDNA transcriptome data, is (hopefully...) easy to install with Conda: https://github.com/ksahlin/isONcorrect …@krsahlin@boti_ka@DanTurnezHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Kristoffer Sahlin proslijedio/la je Tweet
Finally, an RNA error correction method for long reads is out!https://twitter.com/pashadag/status/1215966866138595328 …
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We designed an algorithm to correct reads on gene level using the fact that reads share parts of their sequence (e.g., from splicing). We show that this makes accurate error-correction possible even of reads from very low abundant transcripts. 5/5
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There are genomic error correction tools, but a recent study showed that they are not well suited for transcriptomic long read correction (http://bit.ly/39XOUop ). 4/5
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Reference free correction is useful if no (or low-quality) genome assembly, but also if "high quality" genome is present not to bias correction w.r.t. genome and misalignments (genome alignment of long transcriptomic reads is not perfect; separate study coming soon). 3/5
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Software and documentation available here: https://github.com/ksahlin/isONcorrect … 2/5
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Kristoffer Sahlin proslijedio/la je Tweet
Check out our new
#RECOMB2020 paper with@amatur_r about representing k-mer sets.@PSUScience@BioinformPSU@PSUEngineeringhttps://twitter.com/biorxiv_bioinfo/status/1214943959908278273 …Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
I am happy to announce that as of January 2020 I will be joining the Department of Mathematics at
@Stockholm_uni as an Assistant Professor and as a Fellow at@scilifelab. Back in Sweden after 4+ years
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Kristoffer Sahlin proslijedio/la je Tweet
The
#recombseq2020 CfP is out : https://www.recomb2020.org/recomb-seq-satellites …. The paper submission deadline is Jan. 13th. Submit your work and join us in Padova for the 10th annual RECOMB-seq meeting!Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Kristoffer Sahlin proslijedio/la je Tweet
Elector, our (great) long read corrector evaluator is online on NAR GAB https://academic.oup.com/nargab/article/2/1/lqz015/5625503?searchresult=1 …
@CamilleMrcht@morispi@LolitaLecompte@BQPMalfoypic.twitter.com/MF9bEwkB5g
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Kristoffer Sahlin proslijedio/la je Tweet
"Journal club"-style notes on Wheeler Graphs:https://gist.github.com/rchikhi/ac3d7e7b71e5547cef72a80c8e358283 …
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Kristoffer Sahlin proslijedio/la je Tweet
Linear-time string indexing and analysis in small space. Accepted to ACM TALG. 52 pages, featuring a DAG of dependencies between Lemmas and Theorems. New standard created. Preprint: https://arxiv.org/abs/1609.06378
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Kristoffer Sahlin proslijedio/la je Tweet
What got me the most excited about the
#Python 3.8 release: > multiprocessing can now use shared memory segments to avoid pickling costs between processes FINALLY!#programminghttps://www.python.org/downloads/release/python-380/ …Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi
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