circuit simulation software nanosim Search Results


nanosim pre-trained model human_na12878_dna_fab49712_guppy_flipflop  (Oxford Nanopore)
90
Oxford Nanopore nanosim pre-trained model human_na12878_dna_fab49712_guppy_flipflop
Performance of our 58 selected mapping-friendly sequence reductions across genomes on reads simulated by <t>nanosim</t> (Panel A) shows the whole human genome assembly, (B and C) the subset of mapped reads from panel B that originate from repetitive regions, and C) the “TandemTools” synthetic centromeric reference sequence. We highlighted the best-performing mapping-friendly sequence reductions as MSR E, F, and P, respectively, in terms of cumulative mapeval mapping error rate, fraction of reads mapped, and percentage of better thresholds than HPC. Each point on a line represents, from left to right, the mapping quality thresholds 60, 50, 40, 30, 20, 10, and 0. For the first point of each line, only reads of mapping quality 60 are considered, and the y value represents the rate of these reads that are not correctly mapped, the x value represents the fraction of reads that are mapped at this threshold. The next point is computed for all reads of mapping quality ≥ 50 , etc. The rightmost point on any curve represents the mapping error rate and the fraction of mapped reads for all primary alignments. The x-axes are clipped for lower mapped read fractions to better differentiate HPC, raw and MSRs E, F, and P. See Also <xref ref-type=Figure S7 . " width="250" height="auto" />
Nanosim Pre Trained Model Human Na12878 Dna Fab49712 Guppy Flipflop, supplied by Oxford Nanopore, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/circuit+simulation+software+nanosim/na12878/pmc09633736-278-9-21
Average 90 stars, based on 1 article reviews
nanosim pre-trained model human_na12878_dna_fab49712_guppy_flipflop - by Bioz Stars, 2026-09
90/100 stars
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nanosim-h  (Oxford Nanopore)
90
Oxford Nanopore nanosim-h
Performance of our 58 selected mapping-friendly sequence reductions across genomes on reads simulated by <t>nanosim</t> (Panel A) shows the whole human genome assembly, (B and C) the subset of mapped reads from panel B that originate from repetitive regions, and C) the “TandemTools” synthetic centromeric reference sequence. We highlighted the best-performing mapping-friendly sequence reductions as MSR E, F, and P, respectively, in terms of cumulative mapeval mapping error rate, fraction of reads mapped, and percentage of better thresholds than HPC. Each point on a line represents, from left to right, the mapping quality thresholds 60, 50, 40, 30, 20, 10, and 0. For the first point of each line, only reads of mapping quality 60 are considered, and the y value represents the rate of these reads that are not correctly mapped, the x value represents the fraction of reads that are mapped at this threshold. The next point is computed for all reads of mapping quality ≥ 50 , etc. The rightmost point on any curve represents the mapping error rate and the fraction of mapped reads for all primary alignments. The x-axes are clipped for lower mapped read fractions to better differentiate HPC, raw and MSRs E, F, and P. See Also <xref ref-type=Figure S7 . " width="250" height="auto" />
Nanosim H, supplied by Oxford Nanopore, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/circuit+simulation+software+nanosim/nanosim/pmc09676057-119-6-0
Average 90 stars, based on 1 article reviews
nanosim-h - by Bioz Stars, 2026-09
90/100 stars
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mdanalysis package  (Malvern Panalytical)
99
Malvern Panalytical mdanalysis package
Performance of our 58 selected mapping-friendly sequence reductions across genomes on reads simulated by <t>nanosim</t> (Panel A) shows the whole human genome assembly, (B and C) the subset of mapped reads from panel B that originate from repetitive regions, and C) the “TandemTools” synthetic centromeric reference sequence. We highlighted the best-performing mapping-friendly sequence reductions as MSR E, F, and P, respectively, in terms of cumulative mapeval mapping error rate, fraction of reads mapped, and percentage of better thresholds than HPC. Each point on a line represents, from left to right, the mapping quality thresholds 60, 50, 40, 30, 20, 10, and 0. For the first point of each line, only reads of mapping quality 60 are considered, and the y value represents the rate of these reads that are not correctly mapped, the x value represents the fraction of reads that are mapped at this threshold. The next point is computed for all reads of mapping quality ≥ 50 , etc. The rightmost point on any curve represents the mapping error rate and the fraction of mapped reads for all primary alignments. The x-axes are clipped for lower mapped read fractions to better differentiate HPC, raw and MSRs E, F, and P. See Also <xref ref-type=Figure S7 . " width="250" height="auto" />
Mdanalysis Package, supplied by Malvern Panalytical, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/circuit+simulation+software+nanosim/Zetasizer+Advance/pmc06873166-754-15-26
Average 99 stars, based on 1 article reviews
mdanalysis package - by Bioz Stars, 2026-09
99/100 stars
  Buy from Supplier

Image Search Results


Performance of our 58 selected mapping-friendly sequence reductions across genomes on reads simulated by nanosim (Panel A) shows the whole human genome assembly, (B and C) the subset of mapped reads from panel B that originate from repetitive regions, and C) the “TandemTools” synthetic centromeric reference sequence. We highlighted the best-performing mapping-friendly sequence reductions as MSR E, F, and P, respectively, in terms of cumulative mapeval mapping error rate, fraction of reads mapped, and percentage of better thresholds than HPC. Each point on a line represents, from left to right, the mapping quality thresholds 60, 50, 40, 30, 20, 10, and 0. For the first point of each line, only reads of mapping quality 60 are considered, and the y value represents the rate of these reads that are not correctly mapped, the x value represents the fraction of reads that are mapped at this threshold. The next point is computed for all reads of mapping quality ≥ 50 , etc. The rightmost point on any curve represents the mapping error rate and the fraction of mapped reads for all primary alignments. The x-axes are clipped for lower mapped read fractions to better differentiate HPC, raw and MSRs E, F, and P. See Also <xref ref-type=Figure S7 . " width="100%" height="100%">

Journal: iScience

Article Title: Mapping-friendly sequence reductions: Going beyond homopolymer compression

doi: 10.1016/j.isci.2022.105305

Figure Lengend Snippet: Performance of our 58 selected mapping-friendly sequence reductions across genomes on reads simulated by nanosim (Panel A) shows the whole human genome assembly, (B and C) the subset of mapped reads from panel B that originate from repetitive regions, and C) the “TandemTools” synthetic centromeric reference sequence. We highlighted the best-performing mapping-friendly sequence reductions as MSR E, F, and P, respectively, in terms of cumulative mapeval mapping error rate, fraction of reads mapped, and percentage of better thresholds than HPC. Each point on a line represents, from left to right, the mapping quality thresholds 60, 50, 40, 30, 20, 10, and 0. For the first point of each line, only reads of mapping quality 60 are considered, and the y value represents the rate of these reads that are not correctly mapped, the x value represents the fraction of reads that are mapped at this threshold. The next point is computed for all reads of mapping quality ≥ 50 , etc. The rightmost point on any curve represents the mapping error rate and the fraction of mapped reads for all primary alignments. The x-axes are clipped for lower mapped read fractions to better differentiate HPC, raw and MSRs E, F, and P. See Also Figure S7 .

Article Snippet: Given a reference sequence, simulated reads were obtained using nanosim ( ) with the human_NA12878_DNA_FAB49712_guppy_flipflop pre-trained model, mimicking sequencing with an Oxford Nanopore instrument.

Techniques: Sequencing

Journal: iScience

Article Title: Mapping-friendly sequence reductions: Going beyond homopolymer compression

doi: 10.1016/j.isci.2022.105305

Figure Lengend Snippet:

Article Snippet: Given a reference sequence, simulated reads were obtained using nanosim ( ) with the human_NA12878_DNA_FAB49712_guppy_flipflop pre-trained model, mimicking sequencing with an Oxford Nanopore instrument.

Techniques: Sequencing, Software