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bioconductor-retrofit
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public |
RETROFIT: Reference-free deconvolution of cell mixtures in spatial transcriptomics
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2024-12-15 |
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bioconductor-timeomics
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public |
Time-Course Multi-Omics data integration
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2024-12-15 |
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bioconductor-metapod
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public |
Meta-Analyses on P-Values of Differential Analyses
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2024-12-15 |
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primer3
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public |
Design PCR primers from DNA sequence. From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it.
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2024-12-15 |
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rapidshapes
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public |
RapidShapes computes a thermodynamic matcher (TDM), using a runtime heuristic for probabilistic shape analysis.
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2024-12-15 |
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bioconductor-lea
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public |
LEA: an R package for Landscape and Ecological Association Studies
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2024-12-15 |
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phcue-ck
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public |
phcue-ck (pronounced "F-Q-Seek") is a simple tool to get FTP urls for FASTQ files on ENA.
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2024-12-15 |
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palikiss
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public |
pAliKiss predicts RNA secondary structures for fixed RNA multiple sequence alignments, with special attention for pseudoknotted structures.
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2024-12-15 |
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fastqc-rs
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public |
A fast quality control tool for FASTQ files written in rust.
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2024-12-15 |
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gopeaks
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public |
Peak caller for CUT&TAG data
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2024-12-15 |
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bioconductor-targetsearch
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public |
A package for the analysis of GC-MS metabolite profiling data
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2024-12-15 |
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mupbwt
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public |
A light pbwt-based index
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2024-12-15 |
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bioconductor-treeandleaf
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public |
Displaying binary trees with focus on dendrogram leaves
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2024-12-15 |
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fastqtk
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public |
fastqtk is a fast and lightweight tool for interleaving/deinterleaving/counting/trimming FASTQ files.
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2024-12-15 |
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bioconductor-panr
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public |
Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations
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2024-12-15 |
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rnaalishapes
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public |
RNAalishapes is a tool for secondary structure prediction, using shape abstraction. Input is a multiple sequence alignment. Pseudoknots are not considered at all.
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2024-12-15 |
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python-edlib
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public |
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
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2024-12-15 |
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exparna
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public |
No Summary
|
2024-12-15 |
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damasker
|
public |
DAMASKER: Module to determine where repeats are and make soft-masks of said
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2024-12-15 |
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generax
|
public |
GeneRax: a parallel tool for species tree-aware maximum likelihood based gene tree inference under gene duplication, transfer, and loss.
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2024-12-15 |
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rnaredprint
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public |
Tree-decomposition based dynamic programming algorithm for multiple target RNA design
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2024-12-15 |
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pbbam
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public |
PacBio BAM C++ library
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2024-12-15 |
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locarna
|
public |
Multiple alignment of RNAs
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2024-12-15 |
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phylobayes-mpi
|
public |
A Bayesian software for phylogentic reconstrunction using mixture models
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2024-12-15 |
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bioconductor-switchbox
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public |
Utilities to train and validate classifiers based on pair switching using the K-Top-Scoring-Pair (KTSP) algorithm
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2024-12-15 |
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merquryfk
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public |
MerquryFK replaces meryl with the FastK k-mer counter suite to considerably speed up analyses.
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2024-12-15 |
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perl-ipc-sharelite
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public |
Lightweight interface to shared memory
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2024-12-15 |
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colorid_bv
|
public |
Experiments with using BIGSI data structure for metagenomic and QC applications
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2024-12-15 |
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haslr
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public |
A fast tool for hybrid genome assembly of long and short reads
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2024-12-15 |
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bioconductor-nupop
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public |
An R package for nucleosome positioning prediction
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2024-12-15 |
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bioconductor-santa
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public |
Spatial Analysis of Network Associations
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2024-12-15 |
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pyslow5
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public |
slow5lib Python binding
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2024-12-15 |
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mgems
|
public |
mGEMS - sequencing data binning based on probabilistic classification
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2024-12-15 |
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kissplice
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public |
A local transcriptome assembler for SNPs, indels and AS events
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2024-12-15 |
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r-phylomeasures
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public |
Given a phylogenetic tree T and an assemblage S of species represented as a subset of tips in T, we want to compute a measure of the diversity of the species in S with respect to T. The current package offers efficient algorithms that can process large phylogenetic data for several such measures. Most importantly, the package includes algorithms for computing efficiently the standardized versions of phylogenetic measures and their p-values, which are essential for null model comparisons. Among other functions, the package provides efficient computation of richness-standardized versions for indices such as the net relatedness index (NRI), nearest taxon index (NTI), phylogenetic diversity index (PDI), and the corresponding indices of two-sample measures. The package also introduces a new single-sample measure, the Core Ancestor Cost (CAC); the package provides functions for computing the value and the standardised index of the CAC and, more than that, there is an extra function available that can compute exactly any statistical moment of the measure. The package supports computations under different null models, including abundance-weighted models.
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2024-12-15 |
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ancestry_hmm
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public |
Software for local ancestry inference
|
2024-12-15 |
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bioconductor-biocneighbors
|
public |
Nearest Neighbor Detection for Bioconductor Packages
|
2024-12-15 |
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bioconductor-lfa
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public |
Logistic Factor Analysis for Categorical Data
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2024-12-15 |
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bioconductor-linnorm
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public |
Linear model and normality based normalization and transformation method (Linnorm)
|
2024-12-15 |
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perl-crypt-openssl-rsa
|
public |
RSA encoding and decoding, using the openSSL libraries
|
2024-12-15 |
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bioconductor-veloviz
|
public |
VeloViz: RNA-velocity informed 2D embeddings for visualizing cell state trajectories
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2024-12-15 |
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bioconductor-alevinqc
|
public |
Generate QC Reports For Alevin Output
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2024-12-15 |
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sibeliaz
|
public |
A fast whole-genome aligner based on de Bruijn graphs.
|
2024-12-15 |
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bioconductor-redisparam
|
public |
Provide a 'redis' back-end for BiocParallel
|
2024-12-15 |
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bioconductor-oscope
|
public |
Oscope - A statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-seq
|
2024-12-15 |
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bioconductor-emdomics
|
public |
Earth Mover's Distance for Differential Analysis of Genomics Data
|
2024-12-15 |
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bioconductor-scbubbletree
|
public |
Quantitative visual exploration of scRNA-seq data
|
2024-12-15 |
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bioconductor-screcover
|
public |
scRecover for imputation of single-cell RNA-seq data
|
2024-12-15 |
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bioconductor-alphabeta
|
public |
Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants
|
2024-12-15 |
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bioconductor-bus
|
public |
Gene network reconstruction
|
2024-12-15 |
