Results for "DNA"
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FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below. In recent rice genome sequencing projects, it was cited "the most successful (gene finding) program (Yu et al. (2002) Science 296:79) and was used to produc...Tags: FGENESH, Program, predicting, multiple, genes, genomic, DNA, sequences
1955 days ago
Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences
Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological sequence analyses but it is limited by the verbosit...Tags: Miropeats, discovers, regions, sequence, similarity, DNA, sequences
1706 days ago
- DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. DeepVariant relies on ...
Tags: DeepVariant, analysis, pipeline, deep, neural, network, genetic, variants, next-generation, DNA, sequencing, data
1554 days ago
3D de novo assembly (3D DNA) pipeline
For a detailed description of the pipeline and how it integrates with other tools designed by the Aiden Lab see Genome Assembly Cookbook on http://aidenlab.org/assembly. For the original version of the pipeline and to reproduce the Hs2-HiC and the AaegL4 genomes reported in (...Tags: 3D, de novo, assembly, 3D, DNA, pipeline
1546 days ago
DMINDA2: an integrated web server for DNA motif identification and analyses
DMINDA (DNA motif identification and analyses) is an integrated web server for DNA motif identification and analyses More at http://bmbl.sdstate.edu/DMINDA2/ https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086085/Tags: DMINDA2, integrated, web, server, DNA, motif, identification, analyses
1546 days ago
NucDiff: In-depth characterization and annotation of differences between two sets of DNA sequences
NucDiff locates and categorizes differences between two closely related nucleotide sequences. It is able to deal with very fragmented genomes, structural rearrangements and various local differences. These features make NucDiff to be perfectly suitable to compare assemblies with each other or wit...Tags: NucDiff, In-depth, characterization, annotation, differences, DNA, sequences
1453 days ago
HNADOCK: a nucleic acid docking server for modeling RNA/DNA–RNA/DNA 3D complex structures
The HNADOCK server is to predict the binding complex structure between two nucleic acid molecules through a hierarchical docking algorihtm of an FFT-based global search strategy and an intrinsic scoring function for nucleic acid interactions. Users are required to provide the three-dimensional (3...Tags: HNADOCK, nucleic, acid, docking, server, modeling, RNA, DNA–RNA, DNA, 3D, complex, structures
1422 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms using data from a single locus (a multiple sequence aligned -MSA data), or from several loci (a Multiple-MSA data, such as formats generated by some assembler RAD-seq software). DnaSP can estimate severa...Tags: DnaSP, DNA, Sequence, Polymorphism, software, package, analysis, DNA, polymorphisms
1248 days ago
Kmer: a suite of tools for DNA sequence analysis
More at https://help.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATAC, Assembly to Assembly Comparision tool: Comparative mapping between two genome assemblies (same species), or between two different genomes (cross species). Sim4db: Spliced alignment of cDNA and ge...Tags: Kmer, suite, tools, DNA, sequence, analysis
983 days ago
Metabuli 분리 improves metagenomic read classification
Metabuli 분리 improves metagenomic read classification through metamers, DNA-AA k-mers, to be sensitive and specific, recovering 99% and 98% of DNA or AA classifiers. Metabuli is metagenomic classifier that jointly analyze both DNA and amino acid (AA) sequences. DNA-based classifiers can m...Tags: Metabuli, 분리, metagenomic, read, classification, metamers, DNA-AA, k-mers, sensitive, and specific, DNA, AA, classifiers
328 days ago
