Results for "transcriptome"
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KisSplice is a software that enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler that allows to identify SNPs, indels and alternative splicing events. It can deal with an arbitrary number of biological conditions, and will quantify each...Tags: Bioinformatics, Analysis, NGS, KISSPLICE, Transcriptome, Assembler, Genome
2822 days ago
gVolante: Completeness Assessment of Genome/Transcriptome Sequences
A brand-new web server, gVolante, which provides an online tool for (i) on-demand completeness assessment of sequence sets by means of the previously developed pipelines CEGMA and BUSCO and (ii) browsing pre-computed completeness scores for publicly available data in its database sectionTags: gVolante, Completeness, Assessment, Genome, Transcriptome, Sequences
1942 days ago
gVolante: Completeness Assessment of Genome/Transcriptome Sequences
gVolante provides an online interface for completeness assessment of user’s original or publicly available sequence datasets as well as for browsing results of completeness assessment performed on publicly available genome and transcriptome assemblies.Tags: gVolante, Completeness, Assessment, Genome, Transcriptome, Sequences
1737 days ago
Scallop: reference-based transcriptome assembler for RNA-seq
Scallop is an accurate reference-based transcript assembler. Scallop features its high accuracy in assembling multi-exon transcripts as well as lowly expressed transcripts. Scallop achieves this improvement through a novel algorithm that can be proved preserving all phasing paths from reads and p...Tags: Scallop, reference-based, transcriptome, assembler, RNA-seq, Tools
2193 days ago
ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
With increased availability of de novo assembly algorithms, it is feasible to study entire transcriptomes of non-model organisms. While algorithms are available that are specifically designed for performing transcriptome assembly from high-throughput sequencing data, they are very memory-intensiv...Tags: ASplice, scalable, memory-efficient, algorithm, de novo, transcriptome, assembly
2137 days ago
- ChopStitch is a new method for finding putative exons and constructing splice graphs using an assembled transcriptome and whole genome shotgun sequencing (WGSS) data. ChopStitch identifies exon-exon boundaries in de novo assembled RNA-seq data with the help of a Bloom filter that represents the k...
Tags: ChopStitch, exon, annotation, splice, graph, transcriptome, assembly, whole, genome, sequencing
2137 days ago
transrate: Understanding your transcriptome assembly
Transrate is software for de-novo transcriptome assembly quality analysis. It examines your assembly in detail and compares it to experimental evidence such as the sequencing reads, reporting quality scores for contigs and assemblies. This allows you to choose between assemblers and par...Tags: transrate, Understanding, transcriptome, assembly, rna-seq
2126 days ago
- Cogent is a tool that identifies gene families and reconstructs the coding genome using high-quality transcriptome data without a reference genome, and can be used to check assemblies for the presence of these known coding sequences. Cogent is a tool for reconstruct...
Tags: Cogent, tool, reconstruct, coding, genome, high-quality, full-length, transcriptome, sequences, genome, evaluation
1786 days ago
