Results for "Computational Biology"
Tags
Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs More at http://busco.ezlab.org/Tags: Bioinformatics, Computational Biology, Education, Cancer, Research, BUSCO, Genome, Annotation, Pipeline, NGS, Assembly, Orthologs
3024 days ago
- RATT is software to transfer annotation from a reference (annotated) genome to an unannotated query genome. It was first developed to transfer annotations between different genome assembly versions. However, it can also transfer annotations between strains and even different species, like Plasmo...
Tags: Bioinformatics, Computational Biology, Education, Cancer, Research, RATT, Genome, Annotation, Pipeline, NGS, Assembly
3024 days ago
- Tools to create plots showing N-statistics for genome assemblies More at https://github.com/dentearl/n50PlottingTools
Tags: Bioinformatics, Computational Biology, Education, Plot, N50, NGS
3023 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/
Tags: Bioinformatics, Computational Biology, Education, liftover, N50, NGS, Assembly, Genomics
3023 days ago
- CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies (such as Human hg18 (NCBI36) <> hg19 (GRCh37), Mouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/BigWig,...
Tags: Bioinformatics, Computational Biology, Education, CrossMap, N50, NGS, Assembly, Genomics
3023 days ago
- Pilon is a software tool which can be used to: Automatically improve draft assemblies Find variation among strains, including large event detection Pilon requires as input a FASTA file of the genome along with one or more BAM files of reads aligned to the input FASTA file. Pilon uses read ...
Tags: Bioinformatics, Computational Biology, Education, Pilon, N50, NGS, Assembly, Genomics
3023 days ago
- Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeogr...
Tags: Bioinformatics, Computational Biology, Reads, RAD-Seq, NGS
3007 days ago
- This software is designed to identify both simple and complex rearrangements from paired-end sequencing data. Users could ran it easily by just alling SVelter.py with proper parameters. It's also possible to ran it on multiple cores by calling different sub-functions separately. More a...
Tags: Bioinformatics, Computational Biology, Svelter, Rearrangement
3002 days ago
- Destruct is a tool for joint prediction of rearrangement breakpoints from single or multiple tumour samples. More at https://bitbucket.org/dranew/destruct
Tags: Bioinformatics, Computational Biology, destruct, Rearrangement, Breakpoint
3002 days ago
- Machine Learning in Python Simple and efficient tools for data mining and data analysis Accessible to everybody, and reusable in various contexts Built on NumPy, SciPy, and matplotlib Open source, commercially usable - BSD license More at http://scikit-learn.org/stable/index.html
Tags: Bioinformatics, Computational Biology, Python, Machine Learning, Modules, Scikit, Learn
3002 days ago
