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iseq
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public |
iSeq is a Bash script that allows you to download sequencing data and metadata from GSA, SRA, ENA, and DDBJ databases.
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2024-11-21 |
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hmftools-pave
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public |
PAVE annotates SNV/MNV/INDEL calls with consequence on corresponding genes, transcripts, and proteins.
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2024-11-21 |
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hmftools-peach
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public |
Infer haplotypes for interpretation in a pharmacogenomic context
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2024-11-21 |
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hmftools-neo
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public |
Identification of neoepitope and calculation of allele specific neoepitope binding and presentation likelihood.
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2024-11-21 |
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hmftools-orange
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public |
ORANGE summarizes the key outputs from all algorithms in the Hartwig suite.
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2024-11-21 |
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hmftools-linx
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public |
LINX is an annotation, interpretation and visualisation tool for structural variants.
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2024-11-21 |
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aviary
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public |
End-to-end metagenomics hybrid assembly and binning pipeline.
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2024-11-21 |
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augur
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public |
Process pathogen genome data for the Nextstrain platform.
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2024-11-20 |
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r-dimsum
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public |
An error model and pipeline for analyzing deep mutational scanning (DMS) data and diagnosing common experimental pathologies
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2024-11-20 |
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multiqc
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public |
Create aggregate bioinformatics analysis reports across many samples and tools.
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2024-11-20 |
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meryl
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public |
No Summary
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2024-11-20 |
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gencove
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public |
Gencove is a high-throughput, cost-effective platform for genome sequencing and analysis. This command-line interface can be used to easily access the Gencove API.
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2024-11-20 |
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bed2gtf
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public |
A high-performance BED-to-GTF converter written in Rust
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2024-11-20 |
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r-archr
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public |
This package is designed to streamline scATAC analyses in R.
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2024-11-20 |
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relion
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public |
Image-processing software for cryo-electron microscopy
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2024-11-20 |
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trinity
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public |
Trinity assembles transcript sequences from Illumina RNA-Seq data.
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2024-11-20 |
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biobb_pdb_tools
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public |
Biobb_pdb_tools is a swiss army knife for manipulating and editing PDB files.
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2024-11-20 |
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psmc
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public |
This software package infers population size history from a diploid sequence using the Pairwise Sequentially Markovian Coalescent (PSMC) model
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2024-11-20 |
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mess
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public |
Snakemake pipeline for simulating shotgun metagenomic samples
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2024-11-20 |
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mzspeclib
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public |
HUPO-PSI Spectral library format
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2024-11-20 |
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sprinter
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public |
Single-cell Proliferation Rate Inference in Non-homogeneous Tumours through Evolutionary Routes (SPRINTER)
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2024-11-20 |
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biobb_model
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public |
Biobb_model is the Biobb module collection to check and model 3d structures, create mutations or reconstruct missing atoms.
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2024-11-20 |
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biobb_io
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public |
Biobb_io is the Biobb module collection to fetch data to be consumed by the rest of the Biobb building blocks.
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2024-11-20 |
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biobb_haddock
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public |
biobb_haddock is the Biobb module collection to compute information-driven flexible protein-protein docking.
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2024-11-20 |
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biobb_gromacs
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public |
biobb_gromacs is the Biobb module collection to perform molecular dynamics simulations using the GROMACS MD suite.
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2024-11-20 |
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oakvar
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public |
OakVar - Genomic Variant Analysis Platform
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2024-11-20 |
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neptune-signature
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public |
Neptune: Genomic Signature Discovery
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2024-11-20 |
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clusty
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public |
Clusty is a tool for large-scale data clustering.
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2024-11-20 |
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pango-designation
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public |
Repository for suggesting new lineages that should be added to the current scheme.
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2024-11-20 |
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palantir
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public |
Palantir for modeling continuous cell state and cell fate choices in single cell data
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2024-11-20 |
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crabs
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public |
Crabs (Creating Reference databases for Amplicon-Based Sequencing) is a program to download and curate reference databases for eDNA metabarcoding analyses.
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2024-11-20 |
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svtopo
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public |
Complex structural variant visualization for HiFi sequencing data: extraction tool
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2024-11-20 |
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snk
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public |
A Snakemake CLI and Workflow Management System.
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2024-11-19 |
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search_ncbi
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public |
A package for searching and processing NCBI data
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2024-11-19 |
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gempipe
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public |
gempipe is a tool for the reconstruction of strain-specific genome-scale metabolic models.
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2024-11-19 |
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mvip
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public |
MVP v.1.0, a user-friendly pipeline written in Python and providing a simple framework to perform standard viromics analyses. MVP combines multiple tools to enable viral genome identification, characterization of genome quality, filtering, clustering, taxonomic and functional annotation, genome binning, and comprehensive summaries of results that can be used for downstream ecological analyses. Overall, MVP provides a standardized and reproducible pipeline for both extensive and robust characterization of viruses from large-scale sequencing data including metagenomes, metatranscriptomes, viromes and isolate genomes.
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2024-11-19 |
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hicstuff
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public |
General purpose stuff to generate and handle Hi-C data in its simplest form.
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2024-11-19 |
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hisat2-pipeline
|
public |
A pipeline to automatically run an RNA-seq analysis using HISAT2/Stringtie using default settings.
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2024-11-19 |
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goldrush
|
public |
Linear-time de novo long read assembler, from the Bioinformatics Technology Lab
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2024-11-19 |
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racon
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public |
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads.
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2024-11-19 |
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snpick
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public |
A fast and memory-efficient tool for SNP extraction from genomic alignments.
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2024-11-19 |
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im2deep
|
public |
Framework for prediction of collisional cross-section of peptides.
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2024-11-19 |
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mzpaf
|
public |
HUPO-PSI Peptide peak annotation format
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2024-11-19 |
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cazy_webscraper
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public |
A tool to automate retrieving data from CAZy, build a local CAZyme SQL database, and throughly interrogating the data. Also, automate retrieving protein data, sequences, EC numbers and structure files for specific datasets in the CAZyme database from UniProt, GenBank and PDB.
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2024-11-19 |
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svtopovz
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public |
Complex structural variant visualization for HiFi sequencing data: plotting tool.
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2024-11-19 |
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commec
|
public |
commec: a free, open-source, globally available tool for DNA sequence screening
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2024-11-19 |
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oarfish
|
public |
oarfish is a tool for fast, accurate and versatile transcript quantification from long-read RNA-seq data
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2024-11-19 |
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tb-profiler
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public |
Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from sequencing data
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2024-11-19 |
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parm
|
public |
promoter activity regulatory model
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2024-11-19 |
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treeswift
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public |
TreeSwift: Fast tree module for Python 2 and 3
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2024-11-19 |
