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mlgenotype
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public |
A package with utilities for training random forest classifiers to recognize SVs in short read datasets
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2023-06-18 |
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crisprlungo
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public |
A software pipeline for analyzing single-anchor amplicon sequencing and quantifying complex genome editing outcomes
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2023-06-18 |
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pydmtools
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public |
A python extension written in C for quick access to DNA methylation DM files.
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2023-06-18 |
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cladeomatic
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public |
Clade-O-Matic: Automatic recognition of population structures based on canonical SNPs
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2023-06-18 |
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tolkein
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public |
Tree of Life Kit of Evolutionary Informatics Novelties
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2023-06-18 |
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pyctv_taxonomy
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public |
pyctv_taxonomy: download and use the ICTV Virus Metadata Resource
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2023-06-18 |
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milonga
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public |
MiLongA - A snakemake workflow for Microbial Long-read Assembly
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2023-06-18 |
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drprg
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public |
Drug resistance prediction with reference graphs
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2023-06-18 |
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pepsirf
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public |
Peptide-based Serological Immune Response Framework
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2023-06-18 |
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bamstats
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public |
A command line tool to compute mapping statistics from a BAM file
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2023-06-18 |
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viralflye
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public |
viralFlye is a pipeline to recover high-quality viral genomes from long-read metagenomic sequencing.
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2023-06-18 |
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fastquast
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public |
Fast and simple Quality Assessment Tool for Large Genomes
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2023-06-18 |
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quicksnp
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public |
A python script to quickly build a Neighbor Joining tree using only a SNP distance matrix.
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2023-06-18 |
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read2tree
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public |
Building phylogenetic trees directly from sequencing reads
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2023-06-18 |
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pyham
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public |
A tool to analyse Hierarchical Orthologous Groups (HOGs)
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2023-06-18 |
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pastrami
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public |
Pastrami is a novel, scalable computational algorithm for rapid human ancestry estimation
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2023-06-18 |
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lja
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public |
La Jolla Assembler(LJA) - tool for genome assembly from PacBio HiFI reads based on de Bruijn graphs
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2023-06-18 |
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mindagap
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public |
Takes a single panorama image and fills the empty grid lines with neighbour-weighted values.
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2023-06-18 |
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ngsindex
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public |
Utilities for working with NGS index formats.
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2023-06-18 |
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baypass
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public |
Genome-Wide Scan for Adaptive Differentiation and Association Analysis with population-specific covariables.
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2023-06-18 |
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treeshrink
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public |
an algorithm for detecting (and removing) abnormally long branches in one or more phylogenetic trees
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2023-06-18 |
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contignet
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public |
ContigNet, a deep learning based phage-host interaction prediction tool
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2023-06-18 |
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proteomiqon-alignmentbasedquantification
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public |
Given an MS run in the mzLite or mzml format and a list of a list of peptides deduced by alignment, this tool iterates accross all and performs an XIC extration and quantification in similar to the PSMbasedQuantification tool.
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2023-06-18 |
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deltamsi
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public |
DeltaMSI: AI-based modeling of microsatellite instability scoring on NGS data
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2023-06-18 |
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libshorah
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public |
libshorah - Short Reads Assembly into Haplotypes
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2023-06-18 |
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imods
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public |
toolkit to perform Normal Mode Analysis (NMA) in internal coordinates (IC) on both protein and nucleic acid atomic structures.
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2023-06-18 |
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hmftools-rose
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public |
ROSE makes an actionability summary of the clinical relevant (for the Netherlands) genomic events and signatures as determined by the Hartwig pipeline.
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2023-06-18 |
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hmftools-protect
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public |
PROTECT determines the clinical evidence applicable for a particular tumor sample based on all genomic events and signatures that are determined by the Hartwig pipeline.
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2023-06-18 |
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phaser
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public |
phASEr performs haplotype phasing and provides measures of haplotypic expression for RNA based assays.
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2023-06-18 |
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metagem
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public |
Generate context specific genome-scale metabolic models and predict metabolic interactions directly from metagenomic data
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2023-06-18 |
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authentict
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public |
Estimates present-day DNA contamination in ancient DNA single-stranded libraries.
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2023-06-18 |
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netsyn
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public |
NetSyn is a tool to detect conserved genomic contexts (i.e. synteny conservation) among a list of protein targets.
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2023-06-18 |
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drtransformer
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public |
Heuristic cotranscriptional folding using the nearest neighbor energy model.
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2023-06-18 |
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hmnqc
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public |
Compute differents metrics about quality, check identity and coverage from high-throughput sequencing provided by targeted NGS
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2023-06-18 |
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barseqcount
|
public |
Analysis of DNA barcode sequencing experiments
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2023-06-18 |
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dmbiolib
|
public |
Library of Python functions for bioinformatics
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2023-06-18 |
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circle-map-cpp
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public |
Circle-Map-cpp is the C++ version of Circle-Map
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2023-06-18 |
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msmc2
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public |
This program implements MSMC2, a method to infer population size history and population separation history from whole genome sequencing data
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2023-06-18 |
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nolb
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public |
NOn-Linear rigid Block NMA approach (NOLB) is a conceptually simple and computationally efficient method for non-linear normal mode analysis.
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2023-06-18 |
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binspreader
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public |
BinSPreader is a tool for improving existing binning using assembly
graph and other sources of connectivity information
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2023-06-18 |
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goblin
|
public |
Generate trusted prOteins to supplement BacteriaL annotatIoN
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2023-06-18 |
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hapsolo
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public |
An optimization approach for removing secondary haplotigs during diploid genome assembly and scaffolding.
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2023-06-18 |
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whokaryote
|
public |
Classify metagenomic contigs as eukaryotic or prokaryotic
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2023-06-18 |
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mfold
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public |
Mfold web server for nucleic acid folding and hybridization prediction.
|
2023-06-18 |
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gff2bed
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public |
Convert GFF3-formatted data to BED format
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2023-06-18 |
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purge-dups-runner
|
public |
High Performance Cluster (HPC) runner.
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2023-06-18 |
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updio
|
public |
UPDio is designed to identify uniparental disomy in probands of trio VCF data.
|
2023-06-18 |
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proteomiqon-alignmentbasedquantstatistics
|
public |
The tool ProteomIQon.AlignmentBasedQuantStatistics scores peptide ion quantifications obtained through alignment between runs.
|
2023-06-18 |
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fastsimcoal2
|
public |
fast sequential markov coalescent simulation of genomic data under complex evolutionary models
|
2023-06-18 |
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gapless
|
public |
gapless assembly improvement tool
|
2023-06-18 |
