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perl-class-xsaccessor
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public |
Generate fast XS accessors without runtime compilation
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2024-12-15 |
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fqtools
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public |
An efficient FASTQ manipulation suite.
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2024-12-15 |
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nim-falcon
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public |
Nim-based executables used by Falcon assembly workflow
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2024-12-15 |
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verifybamid2
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public |
A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
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2024-12-15 |
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perl-pod-elemental
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public |
work with nestable Pod elements
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2024-12-15 |
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bioconductor-arrayquality
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public |
Assessing array quality on spotted arrays
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2024-12-15 |
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snp-pileup
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public |
Compute SNP pileup at reference positions in one or more input bam files. Output is ready for the R package facets
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2024-12-15 |
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bioconductor-nnnorm
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public |
Spatial and intensity based normalization of cDNA microarray data based on robust neural nets
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2024-12-15 |
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bioconductor-olin
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public |
Optimized local intensity-dependent normalisation of two-color microarrays
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2024-12-15 |
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bioconductor-stepnorm
|
public |
Stepwise normalization functions for cDNA microarrays
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2024-12-15 |
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bioconductor-rbm
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public |
RBM: a R package for microarray and RNA-Seq data analysis
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2024-12-15 |
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tracy
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public |
Basecalling, alignment, assembly and deconvolution of Sanger chromatogram trace files
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2024-12-15 |
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popdel
|
public |
Fast structural deletion calling on population-scale short read paired-end germline WGS data.
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2024-12-15 |
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bioconductor-proper
|
public |
PROspective Power Evaluation for RNAseq
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2024-12-15 |
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mykrobe
|
public |
Antibiotic resistance prediction in minutes
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2024-12-15 |
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rcorrector
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public |
Rcorrector (RNA-seq error CORRECTOR) is a kmer-based error correction method for RNA-seq data. Rcorrector can also be applied to other type of sequencing data where the read coverage is non-uniform, such as single-cell sequencing.
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2024-12-15 |
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livekraken
|
public |
LiveKraken is a real-time metagenomic classifier for Illumina sequencing data.
|
2024-12-15 |
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kraken
|
public |
Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.
|
2024-12-15 |
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bioconductor-degseq
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public |
Identify Differentially Expressed Genes from RNA-seq data
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2024-12-15 |
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xatlas
|
public |
xAtlas is a fast and retrainable small variant caller that has been developed at the Baylor College of Medicine Human Genome Sequencing Center.
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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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ncbi-vdb
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public |
SRA tools database engine
|
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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python-edlib
|
public |
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
|
2024-12-15 |
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exparna
|
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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pbbam
|
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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bioconductor-switchbox
|
public |
Utilities to train and validate classifiers based on pair switching using the K-Top-Scoring-Pair (KTSP) algorithm
|
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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poppunk
|
public |
PopPUNK (POPulation Partitioning Using Nucleotide Kmers)
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2024-12-15 |
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bioconductor-santa
|
public |
Spatial Analysis of Network Associations
|
2024-12-15 |
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abricate
|
public |
Mass screening of contigs for antibiotic resistance genes
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2024-12-15 |
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kissplice
|
public |
A local transcriptome assembler for SNPs, indels and AS events
|
2024-12-15 |
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fastx_toolkit
|
public |
No Summary
|
2024-12-15 |
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r-phylomeasures
|
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.
|
2024-12-15 |
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bioconductor-lfa
|
public |
Logistic Factor Analysis for Categorical Data
|
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-oscope
|
public |
Oscope - A statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-seq
|
2024-12-15 |
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bioconductor-bus
|
public |
Gene network reconstruction
|
2024-12-15 |
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bioconductor-pcan
|
public |
Phenotype Consensus ANalysis (PCAN)
|
2024-12-15 |
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hmmcopy
|
public |
C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy
|
2024-12-15 |
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splicemap
|
public |
Detects splice junctions from RNA-seq data. This method does not depend on any existing annotation of gene structures and is capable of finding novel splice junctions with high sensitivity and specificity. It can handle long reads (50–100 nt) and can exploit paired-read information to improve mapping accuracy.
|
2024-12-15 |
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bioconductor-dcgsa
|
public |
Distance-correlation based Gene Set Analysis for longitudinal gene expression profiles
|
2024-12-15 |
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repeatscout
|
public |
De novo identification of repeat families in large genomes.
|
2024-12-15 |
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hs-blastn
|
public |
hs-blastn, a fast and accurate nucleotide-nucleotide sequences aligner.
|
2024-12-14 |
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bioconductor-synlet
|
public |
Hits Selection for Synthetic Lethal RNAi Screen Data
|
2024-12-14 |
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perl-par-packer
|
public |
No Summary
|
2024-12-14 |
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bioconductor-compass
|
public |
Combinatorial Polyfunctionality Analysis of Single Cells
|
2024-12-14 |
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bioconductor-ctsge
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public |
Clustering of Time Series Gene Expression data
|
2024-12-14 |
