Results for "Paired-End"
Tags
PAired-eND Assembler for DNA sequences
PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the sequence, and reconstruct an overlapping sequence. More at https://github.com/neufeld/pandaseqTags: Bioinformatics, NGS, Assembly, Paired-End, PANDASEQ, Illumina
2935 days ago
- MIRA is a multi-pass DNA sequence data assembler/mapper for whole genome and EST/RNASeq projects. MIRA assembles/maps reads gained by electrophoresis sequencing (aka Sanger sequencing) 454 pyro-sequencing (GS20, FLX or Titanium) Ion Torrent Solexa (Illumina) sequencing ...
Tags: Bioinformatics, NGS, Assembly, Paired-End, MIRA, Illumina
2935 days ago
- PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger. It is fully parallelized and can run with as low as just a few kilobytes of memory. PEAR evaluates all possible paired-end read overlaps and without requiring the target fragment size as input. In addition, it ...
Tags: Bioinformatics, Analysis, Assembly, Genome, PEAR, Merge, Paired-End
2678 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
We describe a new algorithm, meraculous, for whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived from the 15.4 megabase genome of the haploid yeast Pichia stipitis. More than 95% of the genome is recovered, wi...Tags: Meraculous, De Novo, Genome, Assembly, Short, Paired-End, Reads
2355 days ago
- PERGA - Paired End Reads Guided Assembler PERGA is a novel sequence reads guided de novo assembly approach which adopts greedy-like prediction strategy for assembling reads to contigs and scaffolds. Instead of using single-end reads to construct contig, PERGA uses paired-end reads and differen...
Tags: PERGA, Paired-End, Read, Guided, De Novo, Assembler, Extending, Contigs, SVM, Look, Ahead, Approach, assembly
2145 days ago
shovill: Assemble bacterial isolate genomes from Illumina paired-end reads
Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill pr...Tags: shovill, Assemble, bacterial, isolate, genomes, Illumina, paired-end, reads
1203 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder, a fast and accurate tool using paired-end RNA-sequencing reads to scaffold genomes. This tool aims to improve the completeness of both protein-coding and non-coding genes. After this tool was applied to scaffolding human contigs, the structures of both protein-coding genes and c...Tags: P_RNA_scaffolder, accurate, genome, scaffolder, paired-end, RNA-sequencing, reads
2138 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragments. The method is suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies. Our method provides another practical alternative to existing mate-...Tags: P_RNA_scaffolder, fast, accurate, genome, scaffolder, paired-end, RNA, sequencing, reads, scaffold
2051 days ago
