Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data
Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data. By using local realignment of reads and local assembly...2031 days ago
kallisto: a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data
kallisto is a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data, or more generally of target sequences using high-throughput...1957 days ago
MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons
MACSE aligns coding NT sequences with respect to their AA translation while allowing NT sequences to contain multiple frameshifts and/or stop codons. MACSE is hence the...1915 days ago
1539 days ago
ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis
...o the complete documentation at proteoclade.readthedocs.io for installation, a user's guide, and examples. https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.10077411520 days ago
HS3D: Homo Sapiens Splice Sites Dataset
...stro, S.Rampone (2002). HS3D, a Dataset of Homo Sapiens Splice Regions, and its Extraction Procedure from a Major Public Database , International Journal of Modern Physics C, 13(8), 1...1435 days ago
k-mers tutorial - classification and taxonomy
DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently, ...995 days ago
GToTree: a user-friendly workflow for phylogenomics
GToTree is a user-friendly workflow for phylogenomics intended to give more researchers the capability to create phylogenomic trees. The open-access Bioinformatics Journal publication is available here, and documentation and examples can be found at the wiki here.814 days ago
CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation
...on Ubuntu. It should work on OSX, but please report any errors to maarten.reijnders@unil.ch or create an issue. https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010075722 days ago
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