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  • Category:NGS
    209 members (2 subcategories, 0 files) - 21:43, 24 October 2022
  • Ngs-bits
    |{{#vardefine:url|https://github.com/imgag/ngs-bits}}
    3 KB (296 words) - 16:57, 10 June 2022
  • NGS-SDK
    |{{#vardefine:app|ngs-sdk}} |{{#vardefine:url|https://github.com/ncbi/ngs}}
    3 KB (320 words) - 17:11, 19 August 2022

Page text matches

  • Category:RNA-Seq
    [[Category:NGS]][[Category:Software]]
    28 members (0 subcategories, 0 files) - 15:28, 23 August 2022
  • Category:Assembly
    [[Category:Biology]][[Category:NGS]][[Category:Software]]
    20 members (0 subcategories, 0 files) - 15:24, 23 August 2022
  • PGDSpider
    [[Category:Software]][[Category:Biology]][[Category:NGS]] .... However, since PGDSpider allows one to convert specific subsets of these NGS files into any other format, one could use this feature to calculate parame
    3 KB (387 words) - 19:04, 10 June 2022
  • AMPtk
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...mplicon data using USEARCH and VSEARCH, it can also be used to process any NGS amplicon data and includes databases setup for analysis of fungal ITS, fung
    2 KB (289 words) - 12:41, 12 August 2022
  • Biolite
    BioLite provides generalized components aimed at developers of NGS analyses workflows. These include: * A 'catalog' database for pairing metadata with and organizing NGS data files.
    3 KB (362 words) - 12:54, 15 August 2022
  • GMcloser
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...ation sequencing (NGS) reads. Unlike other gap-closing tools that use only NGS reads, GMcloser uses preassembled contig sets or long read sets as the sequ
    3 KB (321 words) - 17:25, 10 June 2022
  • DCC
    [[Category:Software]][[Category:biology]][[Category:NGS]] detects back-splice junctions in ngs data
    2 KB (236 words) - 18:45, 12 August 2022
  • VarScan
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...ped at the Genome Institute at Washington University to detect variants in NGS data.
    3 KB (324 words) - 20:54, 12 August 2022
  • Scalpel
    [[Category:Software]][[Category:Biology]][[Category:NGS]] Bioinformatics pipeline for discovery of genetic variants from NGS reads.
    2 KB (239 words) - 22:07, 21 August 2022
  • Je
    [[Category:Software]][[Category:Biology]][[Category:NGS]] Je tool suite for de-multiplexing and PCR duplicate removal of NGS datasets.
    2 KB (242 words) - 14:44, 10 June 2022
  • GEM
    [[Category:Software]] [[Category:Biology]] [[Category:NGS]][[Category:Sequencing]] The Genome Mappability Analysis suite is used for measuring how well NGS reads can be mapped to reference genomes, especially for discovering variat
    2 KB (254 words) - 17:00, 15 August 2022
  • Pcangsd
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] ...frequencies as prior information for the unobserved genotypes in low-depth NGS data.
    3 KB (343 words) - 18:21, 8 December 2023
  • RTGTools
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...mpare multiple VCF files, as well as utilities for processing other common NGS data formats.
    2 KB (254 words) - 15:06, 10 June 2022
  • LASTZ
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...es and from different species, it is also useful for sequences produced by NGS sequencing technologies such as Roche 454.
    2 KB (284 words) - 19:30, 12 August 2022
  • SortMeRNA
    [[Category:Software]][[Category:Biology]][[Category:Sequencing]][[Category:NGS]] ...a biological sequence analysis tool for filtering, mapping and OTU-picking NGS reads. The core algorithm is based on approximate seeds and allows for fast
    3 KB (299 words) - 17:00, 10 June 2022
  • NGS-SDK
    |{{#vardefine:app|ngs-sdk}} |{{#vardefine:url|https://github.com/ncbi/ngs}}
    3 KB (320 words) - 17:11, 19 August 2022
  • ContaVect
    ...d pipeline can however be used for wider purpose requiring to identify map NGS datasets consisting of a mix of DNA sequences on multiple references. It co
    3 KB (309 words) - 20:40, 10 June 2022
  • GSNP
    [[Category:Software]][[Category:Biology]][[Category:NGS]] As the development of the second generation sequencing technology (NGS), research about the genetic variation can be realized by sequencing about
    3 KB (459 words) - 17:27, 15 August 2022
  • Geomxngspipeline
    ...x NGS Pipeline, developed by NanoString, is an essential part of the GeoMx NGS workflow. The Pipeline processes RNA-sequencing files (FASTQ files) from Il
    3 KB (332 words) - 17:51, 29 January 2024
  • QualiMap
    *bamqc - Evaluate NGS mapping to a reference genome *multi-bamqc - Compare QC reports from multiple NGS mappings
    3 KB (326 words) - 19:32, 24 August 2022
  • SSPACE
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...erl. The input data is given by pre-assembled contig sequences (FASTA) and NGS paired-read data (FASTA or FASTQ). The final scaffolds are provided in FAST
    3 KB (333 words) - 20:44, 12 August 2022
  • SEQuel
    [[Category:Software]][[Category:NGS]][[Category:Biology]] ...tigs output from assembly. While assemblies of next generation sequencing (NGS) data are accurate, they still contain a substantial number of errors that
    3 KB (382 words) - 22:39, 21 August 2022
  • Ngscheckmate
    ...ng (NGS) data files from the same individual. It analyzes various types of NGS data files including (but not limited to) whole genome sequencing (WGS), wh
    3 KB (390 words) - 18:12, 27 May 2022
  • VirusFinder
    ...he previous 1.x versions that accepted only paired-end reads. The types of NGS data that VirusFinder 2 can deal with include whole genome sequencing (WGS)
    3 KB (410 words) - 21:29, 6 December 2019
  • Ngstools
    [[Category:Software]][[Category:biology]][[Category:NGS]] ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account data statistical uncertainty. The methods impleme
    5 KB (708 words) - 15:31, 14 December 2022
  • Lazypipe
    ...he Unix based pipeline for automated assembling and taxonomic profiling of NGS libraries has been developed as a collection of C++, Perl and R scripts. ...inen, Tarja Sironen, Liisa Holm, Olli Vapalahti, Teemu Smura. (2020) Novel NGS Pipeline for Virus Discovery from a Wide Spectrum of Hosts and Sample Types
    4 KB (507 words) - 16:54, 14 December 2022
  • GATK
    [[Category:Software]][[Category:Biology]][[Category:NGS]] ...is problems (like SNP calling) as well as enabling exploratory research on NGS data.
    4 KB (540 words) - 16:53, 15 August 2022
  • RACA
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (235 words) - 19:45, 10 June 2022
  • HLAminer
    ...f short sequence reads (HPTASR), performs targeted de novo assembly of HLA NGS reads and align the resulting contigs to reference HLA alleles from the IMG Subsequently, NGS data sets are interrogated for the presence of one of these kmers (on eithe
    4 KB (541 words) - 14:55, 14 December 2022
  • BLASR
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (236 words) - 18:17, 12 August 2022
  • JACUSA
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Phylogenetics]]
    2 KB (240 words) - 19:08, 15 August 2022
  • Fastix
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (249 words) - 19:38, 10 May 2021
  • EpiNano
    [[Category:Software]][[Category:Biology]][[Category: NGS]]
    2 KB (241 words) - 18:35, 21 July 2022
  • Pandaseq
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]
    2 KB (239 words) - 18:08, 19 August 2022
  • AlleleCount
    Support code for NGS copy number algorithms.
    2 KB (243 words) - 15:34, 12 December 2022
  • Tombo
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (247 words) - 19:28, 1 June 2022
  • Bamstats
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (251 words) - 18:01, 12 August 2022
  • DeTiN
    [[Category:Software]][[Category:NGS]][[Category:Genomics]]
    2 KB (249 words) - 14:39, 15 August 2022
  • Wub
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (250 words) - 17:46, 22 August 2022
  • GASVPro
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (248 words) - 18:57, 12 August 2022
  • Hyb
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
    2 KB (247 words) - 15:07, 10 June 2022
  • PacBio
    [[Category:Software]][[Category:biology]][[Category:NGS]][[Category:Workflow Automation]]
    2 KB (250 words) - 20:10, 24 August 2022
  • RnaQUAST
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]][[Category:RNA-Seq]]
    2 KB (257 words) - 21:57, 21 August 2022
  • Quantas
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (247 words) - 20:29, 12 August 2022
  • Pipe-clip
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (254 words) - 21:22, 6 December 2019
  • GapCloser
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (264 words) - 16:52, 15 August 2022
  • Fastp
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (256 words) - 15:23, 15 August 2022
  • Piggy
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (271 words) - 20:23, 12 August 2022
  • DeNoGAP
    [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]][[Category:NGS]]
    2 KB (272 words) - 21:20, 6 December 2019
  • Seqtk
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (263 words) - 20:40, 12 August 2022
  • Scythe
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (262 words) - 20:36, 12 August 2022
  • Fastx Toolkit
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (257 words) - 16:37, 15 August 2022
  • VEP
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (270 words) - 17:28, 22 August 2022
  • SOAPdenovo-Trans
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (283 words) - 00:05, 22 August 2022
  • CDNA Cupcake
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]
    2 KB (276 words) - 13:24, 15 August 2022
  • MiniCaller
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Phylogenetics]]
    2 KB (273 words) - 19:52, 12 August 2022
  • Cutadapt
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (263 words) - 18:44, 12 August 2022
  • CellRanger-DNA
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]][[Category:Genomics]]
    2 KB (263 words) - 13:25, 15 August 2022
  • SHRiMP
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Genomics]]
    2 KB (269 words) - 22:55, 21 August 2022
  • SALSA
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (269 words) - 20:11, 24 August 2022
  • MetaSV
    [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]][[Category:NGS]]
    2 KB (277 words) - 21:21, 6 December 2019
  • Kallisto
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
    2 KB (278 words) - 16:13, 10 June 2022
  • NxTrim
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (273 words) - 20:08, 12 August 2022
  • PB-Assembly
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]
    2 KB (269 words) - 20:11, 24 August 2022
  • SPAdes
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (280 words) - 15:47, 22 August 2022
  • OrthoFinder
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (276 words) - 17:58, 19 August 2022
  • VAST-TOOLS
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
    2 KB (264 words) - 17:26, 22 August 2022
  • PRICE
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (286 words) - 16:26, 10 June 2022
  • BFAST
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (276 words) - 18:16, 12 August 2022
  • IGV
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Phylogenetics]]
    2 KB (276 words) - 18:42, 15 August 2022
  • Bcftools
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (281 words) - 19:09, 11 April 2024
  • Tantan
    [[Category:Software]][[Category:NGS]][[Category:Genomics]]
    2 KB (280 words) - 19:04, 1 June 2022
  • CellRanger-ATAC
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
    2 KB (281 words) - 13:25, 15 August 2022
  • SimSeq
    [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]][[Category:NGS]]
    2 KB (283 words) - 22:59, 21 August 2022
  • RepeatExplorer
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (278 words) - 21:44, 21 August 2022
  • CellRanger-ARC
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]
    3 KB (288 words) - 18:24, 12 August 2022
  • Fanc
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (281 words) - 15:56, 22 March 2024
  • Flexbar
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Genomics]]
    2 KB (285 words) - 16:45, 15 August 2022
  • Proovread
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (269 words) - 20:27, 12 August 2022
  • Sambamba
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (299 words) - 20:33, 12 August 2022
  • ChromEvol
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (297 words) - 13:34, 15 August 2022
  • OptiType
    ...ing, capable of producing accurate 4-digit HLA genotyping predictions from NGS data by simultaneously selecting all major and minor HLA Class I alleles.
    2 KB (296 words) - 16:37, 10 June 2022
  • IRAP
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (296 words) - 20:10, 24 August 2022
  • CGATools
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (291 words) - 13:26, 15 August 2022
  • MOABS
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (291 words) - 19:53, 12 August 2022
  • ZUMIS
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]
    2 KB (302 words) - 17:55, 22 August 2022
  • BPGA
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (293 words) - 21:13, 6 December 2019
  • CRISPRanalyzer
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    3 KB (294 words) - 14:12, 15 August 2022
  • Diamond
    DIAMOND is a new high-throughput program for aligning a file of NGS reads
    3 KB (307 words) - 14:41, 15 August 2022
  • HapCompass
    [[Category:Software]][[Category:Genomics]][[Category:NGS]]
    2 KB (287 words) - 18:13, 15 August 2022
  • Newbler
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Assembly]][[Category:De Novo]]
    2 KB (305 words) - 16:17, 19 August 2022
  • Bismark
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (293 words) - 18:17, 12 August 2022
  • Preseq
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    3 KB (303 words) - 20:26, 12 August 2022
  • SVDetect
    [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Genomics]]
    3 KB (303 words) - 20:46, 12 August 2022
  • ASE-ANI
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (303 words) - 14:55, 12 August 2022
  • Bamtools
    [[Category:Software]][[Category:NGS]][[Category:Biology]][[Category:Sequencing]]
    2 KB (289 words) - 18:02, 12 August 2022
  • Supercell
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    2 KB (281 words) - 16:55, 10 June 2022
  • ALFA
    ALFA provides a global overview of features distribution composing NGS dataset(s). Given a set of aligned reads (BAM files) and an annotation file
    3 KB (301 words) - 21:33, 26 August 2020
  • Hificnv
    [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]
    2 KB (292 words) - 20:23, 20 March 2024
  • IsoSeq3
    [[Category:Software]][[Category:Biology]][[Category:NGS]]
    3 KB (295 words) - 20:10, 24 August 2022

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