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Search results for genome assembly
genome-assembly
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71 search results found
Nanopolish
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496
Signal-level algorithms for MinION data
Megahit
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442
Ultra-fast and memory-efficient (meta-)genome assembler
Nextdenovo
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306
Fast and accurate de novo assembler for long reads
Ragtag
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286
Tools for fast and flexible genome assembly scaffolding and improvement
Ltr_retriever
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167
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
Blobtools
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136
Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
Viral Ngs
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129
Viral genomics analysis pipelines
Redundans
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121
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
Mitoz
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105
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
Mccortex
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86
De novo genome assembly and multisample variant calling
Pangraph
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72
A bioinformatic toolkit to align genome assemblies into pangenome graphs
Links
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69
⛓Long Interval Nucleotide K-mer Scaffolder
Ggcat
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60
Compacted and colored de Bruijn graph construction and querying
Hinge
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57
Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"
Tigmint
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53
⛓ Correct misassemblies using linked AND long reads
Helen
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52
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
Mpgap
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51
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
Coursera Data Structures And Algorithms Specialization
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51
Master Algorithmic Programming Techniques. Learn algorithms through programming and advance your software engineering or data science career
Gnnome Assembly
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49
Learning to untangle genome assembly with graph neural networks.
Bacass
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47
Simple bacterial assembly and annotation pipeline
Gala
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45
Long-reads Gap-free Chromosome-scale Assembler
Dentist
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44
Close assembly gaps using long-reads at high accuracy.
Allhic
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41
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
Craq
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41
Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement
Indelope
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39
find large indels (in the blind spot between GATK/freebayes and SV callers)
Haslr
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39
A fast tool for hybrid genome assembly of long and short reads
Nextpolish2
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38
Repeat-aware polishing genomes assembled using HiFi long reads
Nam Genomes
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34
Detailed bioinformatics scripts and methods used in the NAM genome paper.
Instagraal
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33
Large genome reassembly based on Hi-C data, continuation of GRAAL
Micropipe
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30
A pipeline for high-quality bacterial genome construction using ONT sequencing
Downpore
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30
Suite of tools for use in genome assembly and consensus. Work in progress.
Genomegraphs.jl
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29
A modern genomics framework for julia
Lrsday
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27
LRSDAY: Long-read Sequencing Data Analysis for Yeasts
Goldrush
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26
Linear-time de novo Long Read Assembler
Blend
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26
BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applications: 1) finding overlapping reads and 2) read mapping. Described by Firtina et al. (published in NARGAB https://doi.org/10.1093/nargab/lqad004)
Teloclip
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26
A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
Metagenomescope
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22
Visualization tool for (meta)genome assembly graphs
Viruspy
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21
A pipeline for viral identification from metagenomic samples
Score Assemblies
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20
Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s)
Cobra
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20
A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.
Jtk
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18
JTK -- a regional diploid genome assembler
Treeval
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17
Pipelines for the production of Treeval data
Centroflye
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17
An algorithm for centromere assembly using long error-prone reads
Physlr
⭐
17
⛓️ Construct a Physical Map from Linked Reads
Fast Sg
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16
Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.
Mgse
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16
Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
Camsa
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15
CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
Ampliconreconstructorom
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14
Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data
Bioinformatics Tools
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14
Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files
Referee
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13
Reference genome quality scores
Angelfish Genome Assembly
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12
This is a pipeline describing how I assembled the complete genome of the freshwater angelfish, Pterophylllum scalare.
Berokka
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12
🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
Setu
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12
SARS-CoV-2 Genome Assembler
Genomicscourse
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11
For QMUL's Genome Bioinformatics MSc module BIO721P & SIB's Spring school in bioinfo & population genomics
Genomeannotator
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11
Pipeline for the identification of (coding) gene structures in draft genomes.
Connet
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10
CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
Vipr
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10
Assembly and intrahost / low-frequency variant calling for viral samples
Metacarvel
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10
MetaCarvel: A scaffolder for metagenomes
Elba
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10
Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly
Modular Assembly Hs18
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9
Mix and match modular genome assembler components
Everest
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9
Viral genome assemble and characterisation
Refgenieserver
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8
Serves a web interface and RESTful API for reference genome assets.
Raft
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8
Lepwrap
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7
A pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring and orienting genome assemblies with said linkage maps.
Genome Sequencing
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7
Assembled Phi-X174 genome using Overlap Graph, Kmer Composition and De-Bruijn Graph.
Ab10 Assembly
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7
B73Ab10 genome assembly methods
Deeppolisher
⭐
7
Transformer-based sequence correction method for genome assembly polishing
Kermit
⭐
6
guided genome assembler using colored overlap graphs
Pseudoseq.jl
⭐
6
Fake genomes, fake sequencing, real insights.
Pyfastg
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5
A minimal Python library for parsing SPAdes FASTG files
Genomeassembly
⭐
5
Implementation of ToL genome assembly workflows
Related Searches
Bioinformatics Genome Assembly (43)
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