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bioconductor-cnorfeeder
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public |
Integration of CellNOptR to add missing links
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2024-12-19 |
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bioconductor-ncigraph
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public |
Pathways from the NCI Pathways Database
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2024-12-19 |
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bioconductor-kcsmart
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public |
Multi sample aCGH analysis package using kernel convolution
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2024-12-19 |
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bioconductor-cghnormaliter
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public |
Normalization of array CGH data with imbalanced aberrations.
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2024-12-19 |
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multixrank
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public |
MultiXrank - heterogeneous MULTIlayer eXploration by RANdom walK with restart. MultiXrank is a Python package for the exploration of heterogeneous multilayer networks, with random walk with restart method. It permits prioritization of nodes between full heterogeneous networks, whatever their complexities.
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2024-12-19 |
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r-sew
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public |
SEW
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2024-12-19 |
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smaca
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public |
smaca is a python tool to detect putative SMA carriers and estimate the absolute SMN1 copy-number in a population.
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2024-12-19 |
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pysamstats
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public |
A Python utility for calculating statistics against genome position based on sequence alignments from a SAM, BAM or CRAM file.
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2024-12-19 |
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vcontact3
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public |
Viral Contig Automatic Clustering and Taxonomy
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2024-12-19 |
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rmats2sashimiplot
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public |
rmats2sashimiplot
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2024-12-19 |
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velocyto.py
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public |
A library for the analysis of RNA velocity.
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2024-12-19 |
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htseq
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public |
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
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2024-12-19 |
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bioconductor-spikeinsubset
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public |
Part of Affymetrix's Spike-In Experiment Data
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2024-12-19 |
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bioconductor-flowploidy
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public |
Analyze flow cytometer data to determine sample ploidy
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2024-12-19 |
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bioconductor-acgh
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public |
Classes and functions for Array Comparative Genomic Hybridization data
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2024-12-19 |
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bioconductor-tpp
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public |
Analyze thermal proteome profiling (TPP) experiments
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2024-12-19 |
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bioconductor-allmll
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public |
A subset of arrays from a large acute lymphoblastic leukemia (ALL) study
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2024-12-19 |
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bioconductor-mosbi
|
public |
Molecular Signature identification using Biclustering
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2024-12-19 |
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bioconductor-rnits
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public |
R Normalization and Inference of Time Series data
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2024-12-19 |
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bioconductor-normqpcr
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public |
Functions for normalisation of RT-qPCR data
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2024-12-19 |
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motifscan
|
public |
A package for motif discovery and motif enrichment analysis
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2024-12-19 |
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bioconductor-plier
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public |
Implements the Affymetrix PLIER algorithm
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2024-12-19 |
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umi_tools
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public |
Tools for dealing with Unique Molecular Identifiers (UMIs) / Random Molecular Tags (RMTs).
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2024-12-19 |
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bioconductor-flowviz
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public |
Visualization for flow cytometry
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2024-12-19 |
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bioconductor-anota
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public |
ANalysis Of Translational Activity (ANOTA).
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2024-12-19 |
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devider
|
public |
Haplotyping small sequences from heterogeneous long-read sequencing samples with a SNP-encoded positional de Bruijn graphs.
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2024-12-19 |
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r-grain
|
public |
Probability propagation in graphical independence networks, also known as Bayesian networks or probabilistic expert systems.
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2024-12-19 |
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r-genomictools
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public |
A loose collection of tools for the analysis of expression and genotype data, currently with the main focus on (e)QTL and MDR analysis.
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2024-12-19 |
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r-pcalg
|
public |
Functions for causal structure learning and causal inference using graphical models. The main algorithms for causal structure learning are PC (for observational data without hidden variables), FCI and RFCI (for observational data with hidden variables), and GIES (for a mix of data from observational studies (i.e. observational data) and data from experiments involving interventions (i.e. interventional data) without hidden variables). For causal inference the IDA algorithm, the Generalized Backdoor Criterion (GBC), the Generalized Adjustment Criterion (GAC) and some related functions are implemented. Functions for incorporating background knowledge are provided.
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2024-12-19 |
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bioconductor-frmatools
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public |
Frozen RMA Tools
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2024-12-19 |
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bioconductor-liebermanaidenhic2009
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public |
Selected data from the HiC paper of E. Lieberman-Aiden et al. in Science (2009)
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2024-12-19 |
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bioconductor-eximir
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public |
R functions for the normalization of Exiqon miRNA array data
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2024-12-19 |
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r-isogene
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public |
Offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.
|
2024-12-19 |
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bioconductor-hapfabia
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public |
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data
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2024-12-19 |
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abyss
|
public |
Assembly By Short Sequences - a de novo, parallel, paired-end short read sequence assembler.
|
2024-12-19 |
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bioconductor-rtopper
|
public |
This package is designed to perform Gene Set Analysis across multiple genomic platforms
|
2024-12-19 |
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bamread
|
public |
Read bam files quickly into dataframes in Python
|
2024-12-19 |
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bioconductor-hyperdraw
|
public |
Visualizing Hypergaphs
|
2024-12-19 |
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atropos
|
public |
trim adapters from high-throughput sequencing reads
|
2024-12-19 |
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bioconductor-spikein
|
public |
Affymetrix Spike-In Experiment Data
|
2024-12-19 |
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bioconductor-makecdfenv
|
public |
CDF Environment Maker
|
2024-12-19 |
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bioconductor-panp
|
public |
Presence-Absence Calls from Negative Strand Matching Probesets
|
2024-12-19 |
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bioconductor-cardinal
|
public |
A mass spectrometry imaging toolbox for statistical analysis
|
2024-12-19 |
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bioconductor-flowtime
|
public |
Annotation and analysis of biological dynamical systems using flow cytometry
|
2024-12-19 |
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bioconductor-cghregions
|
public |
Dimension Reduction for Array CGH Data with Minimal Information Loss.
|
2024-12-19 |
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r-hemdag
|
public |
a collection of Hierarchical Ensemble Methods (HEMs) for Directed Acyclic Graphs (DAGs).
|
2024-12-19 |
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bioconductor-cormotif
|
public |
Correlation Motif Fit
|
2024-12-19 |
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dbghaplo
|
public |
Haplotyping small sequences from heterogeneous long-read sequencing samples with a SNP-encoded positional de Bruijn Graph.
|
2024-12-19 |
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bioconductor-metabocoreutils
|
public |
Core Utils for Metabolomics Data
|
2024-12-19 |
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bioconductor-cytomem
|
public |
Marker Enrichment Modeling (MEM)
|
2024-12-19 |
