ARC: pipeline which facilitates iterative, reference guided de novo assemblies
ARC is a pipeline which facilitates iterative, reference guided de novo assemblies with the intent of: Reducing time in analysis and increasing accuracy of results by only...2124 days ago
GFinisher: a new strategy to refine and finish bacterial genome assemblies
...lication tools for refinement and finalization of prokaryotic genomes assemblies using the bias of GC Skew to...eFinisher.jar \ -i target_contigs.fasta \ -ds alternative_assemblies.fasta -ref reference.fasta \...2124 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
...number of sequenced genomes, both prokaryotic and eukaryotic. However, short reads are difficult to assemble and often lead to highly fragmented assemblies. The recent developments in l...2099 days ago
Rebaler: program for conducting reference-based assemblies using long reads.
Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequences....2070 days ago
2061 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
...are is described in EvidentialGene_quality. Too many transcript assemblies is much better than too few...." you want, and now the only way to get it is to produce way too many assemblies on a good RNA data set, with...2057 days ago
2054 days ago
BAUM – Improving Genome Assembly by Adaptive Unique Mapping and Local Overlap-Layout-Consensus
...on in parallel. BAUM can: (1) perform reference-assisted assembly based on the genome of a close species; (2) or improve the results of existing assemblies that are obtained based on sh...2033 days ago
QUAST-LG: Versatile genome assembly evaluation
QUAST-LG-a tool that compares large genomic de novo assemblies against reference sequences and computes releva...y correctness and completeness. Using QUAST-LG, we show how close the assemblies are to the theoretical optimu...2033 days ago
Synima: a Synteny imaging tool for annotated genome assemblies
Synima written in Perl, which uses the graphical features of R. Synima takes orthologues computed from reciprocal best BLAST hits or OrthoMCL, and DAGchainer, and outputs...2028 days ago