Search results

• GeneMarkS
  ....hmm (P and E) programs identify the maximum likely parse of the whole DNA sequence into protein coding genes (with possible introns) and intergenic regions.
  2 KB (296 words) - 16:45, 27 May 2022
• BloomTree
  The Sequence Bloom Tree (SBT) is a method that will allow you to index a set of sequence. The code base provided here is an implementation of SBT written in
  3 KB (302 words) - 16:49, 10 June 2022
• MetaGeneMark
  ....hmm (P and E) programs identify the maximum likely parse of the whole DNA sequence into protein coding genes (with possible introns) and intergenic regions.
  2 KB (298 words) - 21:22, 6 December 2019
• GeneMarkS-T
  ....hmm (P and E) programs identify the maximum likely parse of the whole DNA sequence into protein coding genes (with possible introns) and intergenic regions.
  2 KB (296 words) - 17:25, 2 June 2022
• DEXTRACTOR
  RS II sequencer. Generally speaking, this information is the sequence of all the reads to produce a highly accurate consensus sequence as the last step in the assembly
  3 KB (441 words) - 19:20, 10 June 2022
• HAPCUT
  ...ts, and outputs the phased haplotype blocks that can be assembled from the sequence reads.
  2 KB (298 words) - 18:13, 15 August 2022
• Ncbi cli
  Use it to find and download sequence, annotation, and metadata for genes and genomes Use '''datasets''' to download biological sequence data across all domains of life from NCBI.
  3 KB (306 words) - 15:47, 9 June 2023
• Fairseq
  Fairseq(-py) is a sequence modeling toolkit that allows researchers and developers to train custom mod A Fast, Extensible Toolkit for Sequence Modeling. Myle Ott and Sergey Edunov and Alexei Baevski and Angela Fan and
  3 KB (296 words) - 15:18, 15 August 2022
• YASRA
  ...improve the performance, both in runtime and quality for 454 and Illumina sequence reads.
  3 KB (304 words) - 20:56, 12 August 2022
• GeneMark-ES
  ....hmm (P and E) programs identify the maximum likely parse of the whole DNA sequence into protein coding genes (with possible introns) and intergenic regions. F
  3 KB (303 words) - 16:44, 27 May 2022
• MMseqs2
  ...ing) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for L ...Soeding J. MMseqs2 desktop and local web server app for fast, interactive sequence searches. Bioinformatics, doi: 10.1093/bioinformatics/bty1057 (2019).]
  3 KB (413 words) - 20:22, 2 October 2023
• Wise
  ...e focused on comparisons of biopolymers, commonly DNA sequence and protein sequence. There are many other packages which do this, probably the best known being
  3 KB (321 words) - 21:29, 6 December 2019
• SNP-Pipeline
  SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organisms sequenced fr ...ne: an automated method for constructing SNP matrices from next-generation sequence data. PeerJ Computer Science 1:e20 https://doi.org/10.7717/peerj-cs.20]
  3 KB (306 words) - 17:00, 10 June 2022
• Catch
  ...ackage for designing probe sets to use for nucleic acid capture of diverse sequence. of species. It allows blacklisting sequence from the design (e.g., background in microbial enrichment),
  3 KB (422 words) - 18:23, 12 August 2022
• DeconSeq
  The DeconSeq tool can be used to automatically detect and efficiently remove sequence contaminations from genomic and metagenomic datasets. It is easily configur ...med/21278185 Schmieder R and Edwards R: Fast identification and removal of sequence contamination from genomic and metagenomic datasets. PLoS ONE 2011, 6:e1728
  3 KB (299 words) - 17:00, 10 June 2022
• Recycler
  ...from sequence data of isolate microbial genomes, plasmidome and metagenome sequence data.
  3 KB (297 words) - 14:21, 11 October 2022
• FSA
  ...using only pairwise estimations of homology. This is made possible by the sequence annealing technique for constructing a multiple alignment from pairwise com
  3 KB (307 words) - 20:38, 23 May 2022
• Ancestryhmm
  ...neously estimating local ancestry and admixture time using next generation sequence data in samples of arbitrary ploidy. ...neously estimating local ancestry and admixture time using next generation sequence data in samples of arbitrary ploidy. PLoS genetics, 13(1), p.e1006529.
  2 KB (291 words) - 21:25, 9 May 2023
• AliStat
  Multiple sequence alignments may contain a variety of completely-specified characters. Here a for multiple sequence alignments. NAR Genomics and Bioinformatics 2 (2), lqaa024.
  3 KB (315 words) - 20:18, 1 October 2020
• REPdenovo
  REPdenovo is designed for constructing repeats directly from sequence reads. It based on the idea of frequent k-mer assembly. REPdenovo provides ...elsen and Yufeng Wu, REPdenovo: Inferring de novo repeat motifs from short sequence reads, PLoS One 11.3 (2016): e0150719.]
  3 KB (327 words) - 21:43, 21 August 2022

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