Ecosyste.ms: Packages

An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.

bioconductor.org "GeneticVariability" keyword

GBScleanR 1.8.0
Error correction tool for noisy genotyping by sequencing (GBS) data
3 versions - Latest release: 19 days ago - 2.17 thousand downloads total - 0 stars on GitHub - 1 maintainer
microbiomeExplorer 1.12.0
Microbiome Exploration App
3 versions - Latest release: 6 months ago - 6.29 thousand downloads total - 1 maintainer
Clomial 1.38.0
Infers clonal composition of a tumor
3 versions - Latest release: 6 months ago - 16.4 thousand downloads total - 1 maintainer
OMICsPCA 1.20.0
An R package for quantitative integration and analysis of multiple omics assays from heterogeneou...
3 versions - Latest release: 6 months ago - 7.29 thousand downloads total - 1 maintainer
QSutils 1.20.0
Quasispecies Diversity
3 versions - Latest release: 6 months ago - 19.7 thousand downloads total - 1 maintainer
ISoLDE 1.30.0
Integrative Statistics of alleLe Dependent Expression
3 versions - Latest release: 6 months ago - 9.18 thousand downloads total - 1 maintainer
pathVar 1.32.0
Methods to Find Pathways with Significantly Different Variability
3 versions - Latest release: 6 months ago - 9.78 thousand downloads total - 1 maintainer
omicsPrint 1.22.0
Cross omic genetic fingerprinting
3 versions - Latest release: 6 months ago - 7.42 thousand downloads total - 1 maintainer
Top 9.0% on bioconductor.org
RTN 2.26.0
RTN: Reconstruction of Transcriptional regulatory Networks and analysis of regulons
3 versions - Latest release: 6 months ago - 3 dependent packages - 28.9 thousand downloads total - 1 maintainer
CrispRVariants 1.30.0
Tools for counting and visualising mutations in a target location
3 versions - Latest release: 6 months ago - 17.1 thousand downloads total - 1 maintainer
FRGEpistasis 1.38.0
Epistasis Analysis for Quantitative Traits by Functional Regression Model
3 versions - Latest release: 6 months ago - 15.8 thousand downloads total - 1 maintainer
appreci8R 1.20.2
appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity an...
4 versions - Latest release: 3 months ago - 7.54 thousand downloads total - 1 maintainer
SIAMCAT 2.6.0
Statistical Inference of Associations between Microbial Communities And host phenoTypes
3 versions - Latest release: 6 months ago - 11.8 thousand downloads total - 1 maintainer
trigger 1.48.0
Transcriptional Regulatory Inference from Genetics of Gene ExpRession
3 versions - Latest release: 6 months ago - 22.3 thousand downloads total - 1 maintainer
trio 3.40.0
Testing of SNPs and SNP Interactions in Case-Parent Trio Studies
3 versions - Latest release: 6 months ago - 23.7 thousand downloads total - 1 maintainer
BUMHMM 1.26.0
Computational pipeline for computing probability of modification from structure probing experimen...
3 versions - Latest release: 6 months ago - 9.56 thousand downloads total - 1 maintainer
VariantTools 1.44.0
Tools for Exploratory Analysis of Variant Calls
3 versions - Latest release: 6 months ago - 2 dependent packages - 27.5 thousand downloads total - 1 maintainer
TVTB 1.28.0
TVTB: The VCF Tool Box
3 versions - Latest release: 6 months ago - 9.85 thousand downloads total - 2 stars on GitHub - 1 maintainer
BiocOncoTK 1.22.2
Bioconductor components for general cancer genomics
4 versions - Latest release: about 1 month ago - 9.97 thousand downloads total - 1 maintainer
Top 7.5% on bioconductor.org
chopsticks 1.68.0
The 'snp.matrix' and 'X.snp.matrix' Classes
3 versions - Latest release: 6 months ago - 40.7 thousand downloads total - 1 maintainer
Top 9.0% on bioconductor.org
RLMM 1.64.0
A Genotype Calling Algorithm for Affymetrix SNP Arrays
3 versions - Latest release: 6 months ago - 27.6 thousand downloads total - 1 maintainer
epistasisGA 1.4.0
An R package to identify multi-snp effects in nuclear family studies using the GADGETS method
3 versions - Latest release: 6 months ago - 1.63 thousand downloads total - 1 stars on GitHub - 1 maintainer
microSTASIS 1.2.0
Microbiota STability ASsessment via Iterative cluStering
3 versions - Latest release: 6 months ago - 1.44 thousand downloads total - 1 maintainer
Top 9.5% on bioconductor.org
beadarraySNP 1.68.0
Normalization and reporting of Illumina SNP bead arrays
3 versions - Latest release: 6 months ago - 37.6 thousand downloads total - 1 maintainer
GSReg 1.36.0
Gene Set Regulation (GS-Reg)
3 versions - Latest release: 6 months ago - 14.4 thousand downloads total - 2 maintainers
BBCAnalyzer 1.32.0
BBCAnalyzer: an R/Bioconductor package for visualizing base counts
3 versions - Latest release: 6 months ago - 12.6 thousand downloads total - 1 maintainer
gmoviz 1.14.0
Seamless visualization of complex genomic variations in GMOs and edited cell lines
3 versions - Latest release: 6 months ago - 4.38 thousand downloads total - 1 maintainer
Top 8.5% on bioconductor.org
deepSNV 1.48.0
Detection of subclonal SNVs in deep sequencing data.
3 versions - Latest release: 6 months ago - 2 dependent packages - 33.9 thousand downloads total - 1 maintainer
hapFabia 1.44.0
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rar...
3 versions - Latest release: 6 months ago - 21.5 thousand downloads total - 1 maintainer
Top 1.8% on bioconductor.org
Rsubread 2.18.0
Mapping, quantification and variant analysis of sequencing data
4 versions - Latest release: 16 days ago - 14 dependent packages - 312 thousand downloads total - 2 maintainers
Top 5.2% on bioconductor.org
GENESIS 2.34.0
GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzi...
3 versions - Latest release: 9 days ago - 1 dependent package - 55.1 thousand downloads total - 32 stars on GitHub - 1 maintainer
Top 4.1% on bioconductor.org
GWASTools 1.50.0
Tools for Genome Wide Association Studies
3 versions - Latest release: 13 days ago - 4 dependent packages - 95.1 thousand downloads total - 13 stars on GitHub - 1 maintainer
Top 4.6% on bioconductor.org
SeqVarTools 1.42.0
Tools for variant data
3 versions - Latest release: 15 days ago - 1 dependent package - 58.6 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 2.1% on bioconductor.org
phyloseq 1.46.0
Handling and analysis of high-throughput microbiome census data
2 versions - Latest release: 7 months ago - 23 dependent packages - 687 thousand downloads total - 1 maintainer
Top 3.0% on bioconductor.org
metagenomeSeq 1.46.0
Statistical analysis for sparse high-throughput sequencing
3 versions - Latest release: 13 days ago - 11 dependent packages - 148 thousand downloads total - 62 stars on GitHub - 1 maintainer
Top 3.3% on bioconductor.org
missMethyl 1.38.0
Analysing Illumina HumanMethylation BeadChip Data
3 versions - Latest release: 13 days ago - 5 dependent packages - 122 thousand downloads total - 3 maintainers
martini 1.24.0
GWAS Incorporating Networks
3 versions - Latest release: 13 days ago - 7.58 thousand downloads total - 4 stars on GitHub - 1 maintainer
Top 4.6% on bioconductor.org
qpgraph 2.38.0
Estimation of genetic and molecular regulatory networks from high-throughput genomics data
3 versions - Latest release: 20 days ago - 1 dependent package - 54.2 thousand downloads total - 1 stars on GitHub - 1 maintainer
RIVER 1.26.0
R package for RIVER (RNA-Informed Variant Effect on Regulation)
2 versions - Latest release: 6 months ago - 8.53 thousand downloads total - 10 stars on GitHub - 1 maintainer
RAIDS 1.0.0
Accurate Inference of Genetic Ancestry from Cancer Sequences
1 version - Latest release: 7 months ago - 708 downloads total - 5 stars on GitHub - 1 maintainer
Top 2.7% on bioconductor.org
snpStats 1.52.0
SnpMatrix and XSnpMatrix classes and methods
2 versions - Latest release: 6 months ago - 15 dependent packages - 395 thousand downloads total - 1 maintainer
gwasurvivr 1.20.0
gwasurvivr: an R package for genome wide survival analysis
2 versions - Latest release: 6 months ago - 9.23 thousand downloads total - 9 stars on GitHub - 1 maintainer
MAGAR 1.10.0
MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation an...
2 versions - Latest release: 6 months ago - 3.97 thousand downloads total - 0 stars on GitHub - 1 maintainer
GeneGeneInteR 1.28.0
Tools for Testing Gene-Gene Interaction at the Gene Level
2 versions - Latest release: 6 months ago - 10.3 thousand downloads total - 1 maintainer
GeneAccord 1.18.0 removed
Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients
1 version - Latest release: 7 months ago - 4.41 thousand downloads total - 2 stars on GitHub - 1 maintainer
Related Keywords
Software 45 Genetics 24 SNP 24 Sequencing 21 ImmunoOncology 13 Clustering 10 GeneExpression 9 MultipleComparison 9 Microarray 8 Transcription 8 GeneRegulation 7 Visualization 7 GenomicVariation 6 QualityControl 6 DataImport 5 Classification 5 GeneSetEnrichment 5 BiomedicalInformatics 5 Regression 5 Microbiome 5 Preprocessing 4 FeatureExtraction 4 Coverage 4 Epigenetics 4 Metagenomics 4 GenomeWideAssociation 4 SequenceMatching 4 GraphAndNetwork 4 DNAMethylation 4 Pathways 4 Alignment 4 RNASeq 3 Transcriptomics 3 Network 3 NetworkInference 3 VariantDetection 3 VariantAnnotation 3 CopyNumberVariation 3 Normalization 3 PrincipalComponent 3 FunctionalGenomics 3 Bayesian 3 DimensionReduction 3 DataRepresentation 3 DNASeq 3 DifferentialMethylation 2 MethylationArray 2 genomics 2 r-package 2 TwoChannel 2 CpGIsland 2 WholeGenome 2 SystemsBiology 2 MathematicalBiology 2 DifferentialExpression 2 SingleCell 2 GUI 2 HiddenMarkovModel 2 geneticvariability 1 systemsbiology 1 transcription 1 transcriptomevariant 1 snp 1 transcriptomics 1 genetics 1 variant 1 ancestry 1 generegulation 1 cancer-genomics 1 ExomeSeq 1 genomicvariation 1 mutual 1 exclusivity 1 cooccurrence 1 clonal 1 cancer 1 SomaticMutation 1 PatternLogic 1 mRNAMicroarray 1 MethylSeq 1 BatchEffect 1 Survival 1 Pharmacogenomics 1 whole-genome-sequencing 1 rna-sequencing 1 rna-seq 1 r-language 1 inference 1 exome-sequencing 1 TargetedResequencing 1 BiologicalQuestion 1 EpigeneticsWorkflow 1 Workflow 1 NetworkEnrichment 1 CRISPR 1 StructuralPrediction 1 SNPsAndGeneticVariability 1 OneChannel 1 AlternativeSplicing 1 ChIPSeq 1