#minimap2 search results

📋Explore one of the highlights of long-read sequence alignment in #OmicsBox 3.1 biobam.com/long-read-sequ… Learn about the complexities of using #Minimap2 for #longreads and #RNA sequence alignment, its features, benefits, and practical applications! #Bioinformatics #Genomics

minimap2-fpga: Integrating hardware-accelerated chaining for efficient end-to-end long-read sequence mapping. #Minimap2 #FPGA #Bioinformatics @biorxivpreprint biorxiv.org/content/10.110…

#Minimap2 #Rust library update. Updates to 2.26, with_seq function, hopeful for MacOS/aarch64 compilation. See full announcement here: sci.kiwi/@josephguhlin/… Crate is here: crates.io/crates/minimap2 #bioinformatics #genomics #nanopore #pacbio

#Minimap2 library for #Python: pypi.org/project/minima… Very alpha stage, but has multithreading. Results are returned in DataFrames with @DataPolars (easy convert to Pandas). Feedback appreciated. I don't know what platforms it'll work on. #Bioinformatics #Genomics #Nanopore

New update to the #minimap2 #rust crate. Experimental multithread support. crates.io/crates/minimap2

mm2-fast: accelerated version of minimap2 that is up to 1.8x faster. #minimap2 #Genomics #longreads #HPC #iamintel @lh3lh3 @chirgjain @wasim_galaxy @Saurabh_Kalikar

Great collaboration with @sanchit_misra @chirgjain @wasim_galaxy @lh3lh3 #genomics #longreads #Minimap2 #HPC

Excited to share a blog summarizing our work on mm2-fast - our accelerated version of minimap2 that is up to 1.8x faster: bwa-mem2.github.io/mm2-fast-blog-…. This work also got published at "Nature Computational Science" earlier this year. Code availability github.com/bwa-mem2/mm2-f… #Minimap2

Pre-release of mm2-fast - our accelerated version of minimap2 - is out! Compatible with minimap2 v2.22. Working on another release that would be compatible with latest minimap2 version (v2.24). #genomics #longreads #Minimap2 #HPC @Saurabh_Kalikar @chirgjain @wasim_galaxy @lh3lh3

Accelerating Minimap2 for accurate long read alignment on GPUs. #Minimap2 #LongReads #Alignment #GPUs biorxiv.org/content/10.110… @biorxivpreprint

mm2-ax (Minimap2 with GPU accelerated chaining) can now be tested on docker. github.com/hsadasivan/mm2… #minimap2 #mm2-ax #alignment #GPU #chaining

Accelerating minimap2 for long-read sequencing applications on modern CPUs. #LongReads #Mapping #minimap2 nature.com/articles/s4358… @NatComputSci

Our paper on acceleration of minimap2 is published at "Nature Computational Science"! Woohoo! Here is the link to access full text: rdcu.be/cHVAK. Latest code: github.com/bwa-mem2/mm2-f… #genomics #longreads #Minimap2 #HPC @Saurabh_Kalikar @chirgjain @wasim_galaxy @lh3lh3

Thanks for the suggestion! Ours are 151bp PE reads, looks like #minimap2 would work (and 3x time faster)! We will def try it - would be nice to benchmark minimap2vsbwamem on WGS somatic calls since we are receiving more WGS projects! :) #bioinformatics

I am thrilled to present mm2-fast: an accelerated version of Minimap2 that achieves up to 3.5x speedup on CPUs while maintaining identical output. Code: github.com/lh3/minimap2/t… #genomics #longreads #Minimap2 #HPC @Saurabh_Kalikar @chirgjain @wasim_galaxy @lh3lh3

Anyone knows the answer to this? #minimap2 #longread #aligner "Does option --secondary=no equal to -N 1" biostars.org/p/9480592

Or you create the graph with #minimap2 then linearize it with biograph then you can map on it with bwa github.com/nguyetdang/Bio…

If you are analysing data from an organism/condition for which there is already a high quality reference annotation, providing splice junctions during alignment (e.g. with #minimap2) is much better than post-alignment correction techniques.

We are happy to announce F5N, the first ever mobile @nanopore sequence analyser available on Google Play play.google.com/store/apps/det… F5N includes #minimap2, #samtools & #f5c @Hasindu2008 (improved #nanopolish). Please test F5N & report issues @ github.com/SanojPunchihew…

5 cm x 9 cm @nvidia Jetson TX2 SoC calling methylation on @nanopore NA12878 reads at 1.2Gbases/hour, powered by #minimap2 - split indexes and #Nanopolish - GPU accelerated signal alignment. 1 module for 1 PromethION module @martinalexsmith :D?

Pre-release of mm2-fast - our accelerated version of minimap2 - is out! Compatible with minimap2 v2.22. Working on another release that would be compatible with latest minimap2 version (v2.24). #genomics #longreads #Minimap2 #HPC @Saurabh_Kalikar @chirgjain @wasim_galaxy @lh3lh3

Now our #Rock64 cluster with #ARM processors can "reliably" perform #minimap2 + #nanopolish call-methylation for 8 Gbase minION flow cell data in around 6.5 hours. Now the PromethION time. @martinalexsmith @Psy_Fer_ the NAS is now doing good !!

The @ncbi Eukaryotic Annotation Pipeline has switched it's aligner from splign to #minimap2 #PAGXXVIII @lh3lh3 @nanopore @PacBio @illumina

latest test subject: @nvidia JetsonNano, performing #minimap2(CPU only -4 hg38 index parts) at 174.1 Kb/s and #f5c (GPU #nanopolish call-methylation) at 326.9Kb/s. Adequate to keep up methylation calling with the @nanopore MinIT's 150kb/s base-calling rate and thus the MinION

Fun fact: Meanwhile, the #ARM cluster performs methylation calling on 75Gb in 15h (5.2h of I/O |14.8h compute). Server ~60h fast5 I/O, ~3h compute on 60Gb. #minimap2 ~2h on the server (peak RSS 20GB) and ~16h on #ARM cluster (peak RSS <4GB)

This is amazing. #Minimap2 was published less than three months ago and already had 68 citations. I’m looking to add another. Well done Heng Li (@lh3lh3). I look forward to meeting you someday. academic.oup.com/bioinformatics…

📋Explore one of the highlights of long-read sequence alignment in #OmicsBox 3.1 biobam.com/long-read-sequ… Learn about the complexities of using #Minimap2 for #longreads and #RNA sequence alignment, its features, benefits, and practical applications! #Bioinformatics #Genomics

#nanopores @Hasindu2008: 'latest test subject: @nvidia JetsonNano, performing #minimap2(CPU only -4 hg38 index parts) at 174.1 Kb/s and #f5c (GPU #nanopolish call-methylation) at 326.9Kb/s. Adequate to keep up methylati… https://t.co/o49Yuf3QRF, see more tweetedtimes.com/v/176?s=tnp

#nanopores @Hasindu2008: '5 cm x 9 cm @nvidia Jetson TX2 SoC calling methylation on @nanopore NA12878 reads at 1.2Gbases/hour, powered by #minimap2 - split indexes and #Nanopolish - GPU accelerated signal alignment. 1 m… https://t.co/QOm8RByagu, see more tweetedtimes.com/v/176?s=tnp