Results for "benchmarking"
Users
About me: PhD student at University of Gothenburg. Most of my work involves designing or benchmarking pipelines for transcriptome and genomic sequencing data related to epigenetics and cancer.Interests: benchmarking and designing tools1317 days ago
Blogs
Calling narrow and broad peaks from ChIP-Seq data
...the binding sites of transcription factor (narrow peaks) and enriched regions of histone modification (broad peaks) from ChIP-Seq data.Read the benchmarking study on Calling narrow...3217 days ago
Bookmarks
Latest paper on comparison of mapping tools
A. Hatem, D. Bozdag, A. E. Toland, U. V. Catalyurek "Benchmarking short sequence mapping tools" BMC Bioinformatics, 14(1):184, 2013. http://bmi.osu.edu/hpc/software/benchmark/ http://b...3916 days ago
- Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs More at http://busco.ezlab.org/
3029 days ago
- +10 more Bookmarks
Top-level pages
Genome Assembly Tools and Software - PART1 !!
...eads DNA Assembly Benchmark for Nanopore long readsA system for benchmarking DNA assembly tools, based on...ngle-copy Orthologs BUSCO completeness assessment employs sets of Benchmarking Universal Single-Copy Ortholo...2705 days ago
- The benchmark module is a great tool to know the time the code takes to run. The output is usually in terms of CPU time. This module provides us with a way to optimize our...
2100 days ago
Wire posts
Opportunity posts
Computational Biologist Scientist @ Strand Life Sciences
...ds. The successful candidate should be able to quickly understand the state-of-art computational biology techniques, prototype them and perform benchmarking studies. The candidate must a...3725 days ago
Application Scientist in Strand LifeSciences Bangalore
...ds. The successful candidate should be able to quickly understand the state-of-art computational biology techniques, prototype them and perform benchmarking studies. The candidate must a...3701 days ago
Tryst
Tryst with a Bioinformatician # Dr Altan Kara
...they should not blindly trust the output of a tool/software but do a benchmarking test for each of the tools wh...e in their research. In addition to this, even if the tools pass the benchmarking, researchers should have a go...2382 days ago
Tags
geck: trio-based comparative benchmarking of variant calls
Determine the accuracy of our model by comparing the precision and recall of GATK Unified Genotyper and Haplotype Caller on the high-confidence SNPs of the NIST Ashkenazim trio and the two independent Platinum Genome trios. We show that our method is able to estimate differential precis...Tags: geck, trio-based, comparative, benchmarking, variant, calls
1832 days ago
Dahak: benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
Dahak is a software suite that integrates state-of-the-art open source tools for metagenomic analyses. Tools in the dahak software suite will perform various steps in metagenomic analysis workflows including data pre-processing, metagenome assembly, taxonomic and functional classification, genome...Tags: Dahak, benchmarking, containerization, tools, analysis, complex, non-clinical, metagenomes
1507 days ago
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Comments
Comment on "Benchmarking Perl Module !"
Benchmarking a Perl module involves measuring the perform...ance of Perl code. Here is a quick guide to benchmarking a Perl module using the Bench...ple modules or subroutines. In summary, benchmarking a Perl module involves writin...435 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...nerate variant calls and regions for use in benchmarking and validating variant callin...lable for HG002 on GRCh37 and GRCh38 Benchmarking best practices:To establish b...lected through 2016GA4GH Best practices for benchmarking germline small variantsPoster...1580 days ago
