Results for "R"
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Alignment of closely related whole genomes/scaffolds
With the relative ease and low cost of current generation sequencing technologies has led to a dramatic increase in the number of sequenced genomes for species across the tree of life. This incre...whole-genome sequences, millions of base pairs in length, to aid in the stu...3028 days ago
Ensembl comparative genomics resources
The Ensembl comparative genomics resources are one such reference set that facilitates...which large-scale synteny, per-base conservation scores and...tly and have a consistent informatics infrastructure and data...nsistency of the annotation across species and the focus on v...2997 days ago
- MAKER is a portable and easily configurable genome annotation pipeline.Its purpose is to allow smaller eukaryotic and prokaryotic genome projects to independently annota..., aligns ESTs and proteins to a genome, produces ab-initio gene predicti...
3018 days ago
- Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs More at http://busco.ezlab.org/
3018 days ago
- RATT is software to transfer annotation from a reference (annotated) genome to an unannotated query genome. It was first developed to t...s between different genome assembly versions. However, it can also tr...Leishmania species or Salmonella enterica onto other Salmonella sero...
3018 days ago
- Tools to create plots showing N-statistics for genome assemblies More at https://github.com/dentearl/n50PlottingTools
3017 days ago
- Convenient conversions between genome assemblie. The liftover package makes it easy to remap genomic coordinates to a different genome assembly. More at https://github.com/aaronwolen/liftover https://www.bioconductor.org/help/workflows/liftOver/
3017 days ago
- CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies (such as Human...ouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most comm...ween assemblies. It’s not a program for aligning sequences t...
3017 days ago
- Pilon is a software tool which can be used to: Automatically improve draft assemblies Find variation among strains, including large...TA file of the genome along with one or more BAM files of reads align...he reads. It then attempts to make improvements to the input genome,...
3017 days ago
- ...Spines is a collection of software tools, developed and used by the Vertebrate Genome Biology Group at the Broad Institute. It provides basic data structures f...well as specialized tool sets for various analyses. It also fea...er for diverged sequences with large gaps. Access Spines here....
3017 days ago
