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r-presto
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public |
Scalable implementation of the Wilcoxon rank sum test and auROC statistic. Interfaces to dense and sparse matrices, as well as genomics analysis frameworks Seurat and SingleCellExperiment.
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2024-12-13 |
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digestiflow-cli
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public |
Command line client for Digestiflow.
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2024-12-13 |
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gxf2chrom
|
public |
Everything in .chrom from GTF/GFF
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2024-12-13 |
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lrge
|
public |
Genome size estimation from long read overlaps
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2024-12-13 |
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usalign
|
public |
Universal structure alignment of monomeric, complex proteins and nucleic acids
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2024-12-13 |
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rgccacmd
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public |
Multiblock data analysis concerns the analysis of several sets of variables (blocks) observed on the same group of individuals. The main aims of the RGCCA package are (i) to study the relationships between blocks and (ii) to identify subsets of variables of each block which are active in their relationships with the other blocks.
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2024-12-13 |
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pgma-simple
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public |
No Summary
|
2024-12-13 |
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r-lymphclon
|
public |
We provide a clonality score estimator that takes full advantage of the multi-biological-replicate structure of modern sequencing experiments; it specifically takes into account the reality that, typically, the clonal coverage is well below 0.1%.
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2024-12-13 |
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ucsc-bedweedoverlapping
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public |
Filter out beds that overlap a 'weed.bed' file.
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2024-12-13 |
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meryl
|
public |
No Summary
|
2024-12-13 |
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mmannot
|
public |
mmannot annotates reads, or quantifies the features. mmmannot takes special care of multi-mapping reads.
|
2024-12-13 |
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pretextgraph
|
public |
Embeds bedgraph data into Pretext contact maps.
|
2024-12-13 |
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ska
|
public |
SKA (Split Kmer Analysis)
|
2024-12-13 |
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coils
|
public |
A generalized profile syntax for biomolecular sequence motifs and its function in automatic sequence interpretation.
|
2024-12-13 |
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ucsc-dbsnoop
|
public |
Produce an overview of a database.
|
2024-12-13 |
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fmlrc
|
public |
A long-read error correction tool using the multi-string Burrows Wheeler Transform
|
2024-12-13 |
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estscan
|
public |
No Summary
|
2024-12-13 |
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get_orfs
|
public |
Fast extraction of ORFs in all possible translation tables
|
2024-12-13 |
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ucsc-linestora
|
public |
generate .ra format from lines with pipe-separated fields
|
2024-12-13 |
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phynder
|
public |
Efficient likelihood calculations to place samples into a phylogenetic tree.
|
2024-12-13 |
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ucsc-stringify
|
public |
Convert file to C strings.
|
2024-12-13 |
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vdjer
|
public |
B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data
|
2024-12-13 |
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perl-socket6
|
public |
IPv6 related part of the C socket.h defines and structure manipulators
|
2024-12-13 |
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ucsc-bigpsltopsl
|
public |
convert bigPsl file to psl
|
2024-12-13 |
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w4mclassfilter
|
public |
Filter Workflow4Metabolomics feature list, optionally imputing NA values.
|
2024-12-13 |
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sctools
|
public |
SCTools is a suite of tools performing utility operations over single-cell samples
|
2024-12-13 |
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popgen-entropy
|
public |
This program is for inferring population structure from autopolyploid and mixed-ploidy individuals, similar to structure, but using genotype-likelihood data for low- to medium-coverage sequencing depth.
|
2024-12-13 |
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selectfasta
|
public |
FASTA or FASTQ select from a list of header names
|
2024-12-13 |
|
vcf-validator
|
public |
EBI EVA - Validation tool for VCF file format compliance
|
2024-12-13 |
|
perl-digest-crc
|
public |
Generic CRC functions
|
2024-12-13 |
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ucsc-wigcorrelate
|
public |
Produce a table that correlates all pairs of wigs.
|
2024-12-13 |
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genodsp
|
public |
General workbench for processing signals along genomic (chromosomal) intervals
|
2024-12-13 |
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perl-perl-unsafe-signals
|
public |
Allow unsafe handling of signals in selected blocks
|
2024-12-13 |
|
ucsc-hgfindspec
|
public |
Create hgFindSpec table from trackDb.ra files.
|
2024-12-13 |
|
sfold
|
public |
Software for Statistical Folding of Nucleic Acids
|
2024-12-13 |
|
fqtrim
|
public |
fqtrim is a versatile stand-alone utility that can be used to trim adapters, poly-A tails, terminal unknown bases (Ns) and low quality 3' regions in reads from high-throughput next-generation sequencing machines.
|
2024-12-13 |
|
nucleosome_prediction
|
public |
This tool allows you to submit a genomic sequence and to recieve a prediction of the nucleosomes positions on it,
|
2024-12-13 |
|
ucsc-ratolines
|
public |
Output .ra file stanzas as single lines, with pipe-separated fields.
|
2024-12-13 |
|
fasta_ushuffle
|
public |
a wrapper for uShuffle
|
2024-12-13 |
|
art
|
public |
No Summary
|
2024-12-13 |
|
kalign2
|
public |
Kalign is a fast and accurate multiple sequence alignment algorithm designed to align large numbers of protein sequences.
|
2024-12-13 |
|
ampliconsuite
|
public |
An end-to-end wrapper for focal amplification analysis from whole-genome sequencing using AmpliconArchitect and associated tools.
|
2024-12-13 |
|
r-erah
|
public |
Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics.
|
2024-12-13 |
|
gvcfgenotyper
|
public |
A utility for merging and genotyping Illumina-style GVCFs.
|
2024-12-13 |
|
perl-acme-damn
|
public |
'Unbless' Perl objects.
|
2024-12-13 |
|
r-lme4qtl
|
public |
Linear mixed models (lme4) with flexible covariance structure for qtl and association analysis.
|
2024-12-13 |
|
pizzly
|
public |
Fast fusion detection using kallisto
|
2024-12-13 |
|
oligomap
|
public |
Oligomap is a program for fast identification of nearly-perfect matches of small RNAs in sequence databases.
|
2024-12-13 |
|
starcode
|
public |
Starcode: sequence clustering based on all-pairs search
|
2024-12-13 |
|
nanoblaster
|
public |
Basic Local Alignment and Search Tool for Oxford Nanopore Long Sequences
|
2024-12-13 |
