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- |{{#vardefine:url|http://wgs-assembler.sourceforge.net/wiki/index.php?title=Main_Page}} ...nomics starting in 1999. It was released to SourceForge in 2004 as the wgs-assembler under the GNU General Public License. The pipeline revised for 454 data was3 KB (359 words) - 20:56, 12 August 2022
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- |{{#vardefine:url|http://sourceforge.net/projects/ligr-assembler/}} ...bly program. It was derived from TIGR Assembler and addresses some of TIGR Assembler's shortcomings.2 KB (249 words) - 19:55, 15 August 2022
- |{{#vardefine:url|http://wgs-assembler.sourceforge.net/wiki/index.php?title=Main_Page}} ...nomics starting in 1999. It was released to SourceForge in 2004 as the wgs-assembler under the GNU General Public License. The pipeline revised for 454 data was3 KB (359 words) - 20:56, 12 August 2022
- |{{#vardefine:url|http://sourceforge.net/apps/mediawiki/wgs-assembler/index.php?title=Main_Paget}} ...nomics starting in 1999. It was released to SourceForge in 2004 as the wgs-assembler under the GNU General Public License. The pipeline revised for 454 data was3 KB (375 words) - 20:55, 12 August 2022
- ...alternative splicing and different expression level among transcripts.The assembler provides a more accurate, complete and faster way to construct the full-len2 KB (283 words) - 00:05, 22 August 2022
- ...sets in an experiment. PsiCLASS is both a transcript assembler and a meta-assembler, producing separate transcript sets for the individual samples and a unifie ...efore, it can be effectively used as a multi-sample and as a single-sample assembler, as well as in conventional assemble-and-merge protocols.4 KB (480 words) - 15:00, 14 December 2022
- ...censed assembler that is designed from the ground up to allow for multiple assembler syntaxes to be supported (e.g. NASM, GNU AS, etc.) in addition to multiple2 KB (292 words) - 17:53, 22 August 2022
- ...into potential transcripts. It is primarily a genome-guided transcriptome assembler, although it can borrow algorithmic techniques from de novo genome assembly3 KB (301 words) - 20:45, 12 August 2022
- ...De Novo short read assembler for meta-transcriptome. It is purely de novo assembler based on paired-end RNA sequencing reads only. IDBA-MT is a post-processing3 KB (315 words) - 21:21, 6 December 2019
- Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as Solexa o MetaVelvet is a single-genome and de Bruijn-graph based assembler Velvet modified and extended for de novo metagenome assembly. The fundament3 KB (326 words) - 19:28, 18 August 2022
- |{{#vardefine:url|http://platanus.bio.titech.ac.jp/platanus-assembler}} Platanus is a novel de novo sequence assembler that can reconstruct genomic sequences of3 KB (318 words) - 21:23, 6 December 2019
- ...Sequencing data geared for large genomes. It is a hybrid k-mer/read-based assembler that capitalizes on the high accuracy of Illumina sequence by eschewing an3 KB (354 words) - 18:36, 10 June 2022
- ...is around 5Gb for 100M reads. KisSplice is not a full-length transcriptome assembler. This means that it will output the variable regions of the transcripts, no3 KB (359 words) - 19:33, 15 August 2022
- The goal of the Shasta long read assembler is to rapidly produce accurate assembled sequence using as input DNA reads Computational methods used by the Shasta assembler include:3 KB (402 words) - 21:24, 6 December 2019
- Sequence assembler for very short reads. Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as Solexa o4 KB (523 words) - 17:06, 14 December 2022
- PANDASEQ is a PAired-eND Assembler for DNA sequences.2 KB (239 words) - 18:08, 19 August 2022
- An Illumina PE genome contig assembler2 KB (246 words) - 21:29, 6 December 2019
- ...ear total rewrite of 'meryl' that appeared in both project kmer and Celera Assembler.2 KB (254 words) - 22:26, 8 September 2020
- emerging during the scaffolding process by SOAPdenovo or other assembler,2 KB (264 words) - 16:52, 15 August 2022
- Improved Phased Assembler (IPA) is the official PacBio software for HiFi genome assembly. IPA was des2 KB (268 words) - 21:58, 27 April 2022
- St. Petersburg genome assembler2 KB (280 words) - 15:47, 22 August 2022
- ZORRO is a hybrid sequencing technology assembler. It merges two sets of pre-assembled contigs into a more contiguous and con2 KB (284 words) - 17:54, 22 August 2022
- ...lly developed for Illumina data, but thanks to the versatility of the MIRA assembler, MITObim supports in principle also data from the Iontorrent, 454 and PacBi3 KB (301 words) - 15:20, 22 April 2020
- Scallop is an accurate reference-based transcript assembler. Scallop features its high accuracy in assembling multi-exon transcripts as2 KB (289 words) - 14:44, 26 January 2021
- Haploflow is a strain-aware viral genome assembler for short read sequence data. It uses a flow algorithm on a deBruijn graph2 KB (287 words) - 20:31, 3 January 2022
- be produced by any assembler. The input read data of SCOP is paired-end or2 KB (295 words) - 17:31, 15 August 2022
- Raven is a de novo genome assembler for long uncorrected reads.2 KB (284 words) - 21:14, 20 November 2023
- the assembler to a smaller set of representative sequences, preserving3 KB (294 words) - 13:52, 15 August 2022
- Clover is a clustering-oriented de novo assembler for Illumina sequences,2 KB (296 words) - 13:47, 15 August 2022
- SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT) data. It produces an assembly from all2 KB (296 words) - 21:24, 6 December 2019
- NOVOPlasty is a de novo assembler and heteroplasmy/variance caller for short circular genomes.3 KB (310 words) - 21:23, 6 December 2019
- Hifiasm is a fast haplotype-resolved de novo assembler for PacBio Hifi reads. It can assemble a human genome in several hours and3 KB (303 words) - 22:23, 27 August 2020
- YASRA (Yet Another Short Read Assembler) performs comparative assembly of short reads using a reference genome, whi3 KB (304 words) - 20:56, 12 August 2022
- Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ON3 KB (310 words) - 17:44, 22 August 2022
- Oases is a de novo transcriptome assembler designed to produce transcripts2 KB (293 words) - 17:25, 19 August 2022
- |{{#vardefine:url|http://mira-assembler.sourceforge.net/}} ...ble, CLR not yet. Please visit [http://sourceforge.net/apps/mediawiki/mira-assembler/ the app website] for more details.2 KB (313 words) - 20:42, 18 August 2022
- Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by3 KB (306 words) - 20:10, 18 August 2022
- ALLPATHS-LG is a short read assembler. It has been designed to use reads2 KB (299 words) - 12:36, 12 August 2022
- Flye is a de novo assembler for long and noisy reads, such as those produced by PacBio and Oxford Nanop3 KB (317 words) - 21:20, 6 December 2019
- NextDenovo is a string graph-based de novo assembler for long reads (CLR, HiFi and ONT). It uses a "correct-then-assemble" strat3 KB (312 words) - 18:03, 10 May 2021
- IVA is a de novo assembler designed to assemble virus genomes that have no repeat sequences, using Ill2 KB (300 words) - 16:06, 7 December 2021
- ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful fo2 KB (315 words) - 16:17, 19 August 2022
- ...is also part of an assembly pipeline which includes an ultrafast nanopore assembler Shasta and a multi-task RNN polisher HELEN. HELEN operates on images genera3 KB (320 words) - 21:22, 6 December 2019
- DISCOVAR is a new variant caller and DISCOVAR de novo a new genome assembler, both designed for state-of-the-art data. Their inputs are chosen to optimi3 KB (326 words) - 14:41, 15 August 2022
- ...resents our primary goal -- to produce A Modular, Open-Source whole genome assembler. Open-source so that everyone is welcome to contribute and help build outst3 KB (344 words) - 12:41, 12 August 2022
- Zimin, A. et al. The MaSuRCA genome Assembler. Bioinformatics (2013). doi:10.1093/bioinformatics/btt4763 KB (340 words) - 18:24, 18 August 2022
- SHort-read Assembler based on Robust Contig-extension for Genomic Sequencing.3 KB (313 words) - 22:42, 21 August 2022
- Bridger is an efficient ''de novo'' transcriptome assembler for RNA-Seq data. It expects as input RNA-Seq reads (single or paired) in f3 KB (341 words) - 13:14, 15 August 2022
- Nilgun Donmez and Michael Brudno (2011) Hapsembler: an assembler for highly polymorphic genomes. In Proceedings of the 15th Annual internati3 KB (332 words) - 18:15, 15 August 2022
- IDBA-UD is a iterative De Bruijn Graph De Novo Assembler for Short Reads Sequencing data with Highly Uneven Sequencing Depth. It is3 KB (354 words) - 18:40, 15 August 2022
- .... It uses Vmatch [2] to extend seed reads (or contigs generated by another assembler) into longer contigs, by iteratively calling Vmatch and Trinity, until some3 KB (344 words) - 20:52, 12 August 2022
- Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII3 KB (358 words) - 14:26, 14 April 2020
- ABruijn is a ''de novo'' assembler for PacBio and Oxford Nanopore Technologies reads. The algorithm uses an A-3 KB (354 words) - 20:09, 24 August 2022
- BinPacker is an efficient de novo trascriptome assembler for RNA-Seq data. It can assemble all transcripts from short reads (single3 KB (365 words) - 12:53, 15 August 2022
- SRAssembler (Selective Recursive local Assembler) is a modular pipeline program that can assemble genomic DNA reads into con3 KB (381 words) - 15:33, 27 May 2022
- Xander Gene-targeted Metagenomic Assembler3 KB (381 words) - 19:07, 10 June 2022
- MEGAHIT is a single node assembler for large and complex metagenomics NGS reads, such as soil. It makes use of3 KB (367 words) - 18:31, 18 August 2022
- MOSAIK is a reference-guided assembler comprising of four main modular programs:3 KB (414 words) - 11:59, 19 August 2022
- ...tection of genomic rearrangements. GRIDSS includes a genome-wide break-end assembler, as well as a structural variation caller for Illumina sequencing data. GRI3 KB (388 words) - 21:20, 6 December 2019
- Wengan is a new genome assembler that, unlike most of the current long-reads assemblers, avoids4 KB (472 words) - 20:55, 12 August 2022