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shapeit4
|
public |
fast and accurate method for estimation of haplotypes (phasing)
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2025-03-25 |
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scicone
|
public |
Single-cell copy number calling and event history reconstruction
|
2025-03-25 |
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bioconductor-hmmcopy-single-cell
|
public |
Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples.
|
2025-03-25 |
|
destruct_utils
|
public |
Bioinformatics tool for joint prediction of rearrangement breakpoints from single or multiple tumour samples
|
2025-03-25 |
|
cplex
|
public |
CPLEX optimization studio
|
2025-03-25 |
|
bioconductor-aneufinder
|
public |
This package implements functions for CNV calling, plotting, export and analysis from whole-genome single cell sequencing data.
|
2025-03-25 |
|
bioconductor-aneufinderdata
|
public |
This package implements functions for CNV calling, plotting, export and analysis from whole-genome single cell sequencing data.
|
2025-03-25 |
|
r-cowplot
|
public |
Some helpful extensions and modifications to the 'ggplot2' package. In particular, this package makes it easy to combine multiple 'ggplot2' plots into one and label them with letters, e.g. A, B, C, etc., as is often required for scientific publications. The package also provides a streamlined and clean theme that is used in the Wilke lab, hence the package name, which stands for Claus O. Wilke's plot package.
|
2025-03-25 |
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r-reordercluster
|
public |
Tools for performing the leaf reordering for the dendrogram that preserves the hierarchical clustering result and at the same time tries to group instances from the same class together.
|
2025-03-25 |
|
bioconductor-bamsignals
|
public |
This package allows to efficiently obtain count vectors from indexed bam files. It counts the number of reads in given genomic ranges and it computes reads profiles and coverage profiles. It also handles paired-end data.
|
2025-03-25 |
|
single_cell_pipeline
|
public |
Bioinformatics pipeline for single cell analysis
|
2025-03-25 |
|
samtools
|
public |
Tools for dealing with SAM, BAM and CRAM files
|
2025-03-25 |
|
bcl2fastq
|
public |
bcl2fastq Conversion Software both demultiplexes data and converts BCL files generated by Illumina sequencing systems to standard FASTQ file formats for downstream analysis.
|
2025-03-25 |
|
nuseq
|
public |
No Summary
|
2025-03-25 |
|
perl-bio-db-hts
|
public |
No Summary
|
2025-03-25 |
|
lichee
|
public |
No Summary
|
2025-03-25 |
|
spruce
|
public |
No Summary
|
2025-03-25 |
|
lemon
|
public |
No Summary
|
2025-03-25 |
|
mapscape
|
public |
No Summary
|
2025-03-25 |
|
phylowgs
|
public |
No Summary
|
2025-03-25 |
|
r-ascat
|
public |
No Summary
|
2025-03-25 |
|
pvacseq
|
public |
No Summary
|
2025-03-25 |
|
swagger-spec-validator
|
public |
No Summary
|
2025-03-25 |
|
strict-rfc3339
|
public |
No Summary
|
2025-03-25 |
|
connexion
|
public |
No Summary
|
2025-03-25 |
|
clickclick
|
public |
No Summary
|
2025-03-25 |
|
blossomv
|
public |
Python wrapper for the Blossom V algorithm
|
2025-03-25 |
|
theta
|
public |
Tumor Heterogeneity Analysis (THetA) is an algorithm that estimates the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data.
|
2025-03-25 |
|
bnpy
|
public |
Bayesian nonparametric machine learning for python.
|
2025-03-25 |
|
bicseq2-seg
|
public |
No Summary
|
2025-03-25 |
|
bicseq2-norm
|
public |
No Summary
|
2025-03-25 |
|
r-ada
|
public |
Performs discrete, real, and gentle boost under both exponential and logistic loss on a given data set. The package ada provides a straightforward, well-documented, and broad boosting routine for classification, ideally suited for small to moderate-sized data sets.
|
2025-03-25 |
|
samblaster
|
public |
A tool to mark duplicates and extract discordant and split reads from sam files.
|
2025-03-25 |
|
delly_utils
|
public |
Structural variant discovery by integrated paired-end and split-read analysis
|
2025-03-25 |
|
remixt
|
public |
ReMixT is a tool for joint inference of clone specific segment and breakpoint copy number in whole genome sequencing data
|
2025-03-25 |
|
biobambam2
|
public |
Tools for early stage alignment file processing
|
2025-03-25 |
|
libmaus2
|
public |
collection of data structures and algorithms
|
2025-03-25 |
|
libmaus
|
public |
libmaus is a collection of data structures and algorithms
|
2025-03-25 |
|
boost_lib
|
public |
Library for boost c++
|
2025-03-25 |
|
citup
|
public |
Clonality inference in multiple tumor samples using phylogeny
|
2025-03-25 |
|
shapeit
|
public |
SHAPEIT is a fast and accurate method for estimation of haplotypes (aka phasing) from genotype or sequencing data.
|
2025-03-25 |
|
hmmcopy_utils
|
public |
Utilities for HMMCopy
|
2025-03-25 |
|
gsl
|
public |
No Summary
|
2025-03-25 |
|
clonehd
|
public |
High-definition reconstruction of clonal composition from next-generation sequencing data
|
2025-03-25 |
|
bioconductor-titan
|
public |
Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples.
|
2025-03-25 |
|
r-argparse
|
public |
A command line parser to be used with Rscript to write "#!" shebang scripts that gracefully accept positional and optional arguments and automatically generate usage.
|
2025-03-25 |
|
r-findpython
|
public |
Package designed to find an acceptable python binary.
|
2025-03-25 |
|
bioconductor-hmmcopy
|
public |
Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples.
|
2025-03-25 |
|
defuse
|
public |
Bioinformatics tool for gene fusion discovery using RNA-Seq data
|
2025-03-25 |
|
biowrappers
|
public |
No Summary
|
2025-03-25 |
