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ucsc-bedtobigbed
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public |
Convert bed file to bigBed. (BigBed version: 4)
|
2024-12-16 |
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aegean
|
public |
The AEGeAn Toolkit provides a bundle of software tools for evaluating gene structure annotations and genome organization. The software is implemented in C and Python.
|
2024-12-16 |
|
aletsch
|
public |
Aletsch is an accurate, versatile assembler for multiple RNA-seq samples.
|
2024-12-16 |
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ntsm
|
public |
ntsm - Nucleotide Sequence/Sample Matcher
|
2024-12-16 |
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bioconductor-affyio
|
public |
Tools for parsing Affymetrix data files
|
2024-12-16 |
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vtools
|
public |
Various tools operating over VCF files. Uses cyvcf2 and cython under the hood for speed
|
2024-12-16 |
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perl-json-xs
|
public |
JSON serialising/deserialising, done correctly and fast
|
2024-12-16 |
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orfanage
|
public |
Ultra-efficient and sensitive method to search for ORFs in spliced genomes guided by reference annotation to maximize protein similarity within genes.
|
2024-12-16 |
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bioconductor-rsubread
|
public |
Mapping, quantification and variant analysis of sequencing data
|
2024-12-16 |
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strainr2
|
public |
StrainR2 accurately deconvolutes strain-level abundances in synthetic microbial communities using metagenomic sequencing reads
|
2024-12-16 |
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callerpp
|
public |
A simple consensus caller based on partial order alignment with spoa
|
2024-12-16 |
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asgal
|
public |
A graph aligner
|
2024-12-16 |
|
orfipy
|
public |
orfipy: fast and flexible search for open reading frames in fasta sequences
|
2024-12-15 |
|
genomedata
|
public |
Tools for accessing large amounts of genomic data
|
2024-12-15 |
|
mycotools
|
public |
Comparative genomics automation and standardization software.
|
2024-12-15 |
|
fastremap-bio
|
public |
FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool.
|
2024-12-15 |
|
haptools
|
public |
Ancestry and haplotype aware simulation of genotypes and phenotypes for complex trait analysis
|
2024-12-15 |
|
metilene
|
public |
Fast and sensitive detection of differential DNA methylation
|
2024-12-15 |
|
oncocnv
|
public |
a package to detect copy number changes in Deep Sequencing data
|
2024-12-15 |
|
svdss
|
public |
Structural Variant Discovery from Sample-specific Strings.
|
2024-12-15 |
|
crispritz
|
public |
CRISPRitz, tool package for CRISPR experiments assessment and analysis.
|
2024-12-15 |
|
minimac4
|
public |
Computationally efficient genotype imputation
|
2024-12-15 |
|
quast
|
public |
Quality Assessment Tool for Genome Assemblies
|
2024-12-15 |
|
pecat
|
public |
A phased error correction and assembly tool
|
2024-12-15 |
|
ribotaper
|
public |
RiboTaper is a new analysis pipeline for Ribosome Profiling (Ribo-seq) experiments, which exploits the triplet periodicity of ribosomal footprints to call translated regions.
|
2024-12-15 |
|
perl-retroseq
|
public |
RetroSeq: discovery and genotyping of TEVs from reads in BAM format.
|
2024-12-15 |
|
sequenza-utils
|
public |
Analysis of cancer sequencing samples, utilities for the R package sequenza
|
2024-12-15 |
|
dunovo
|
public |
Du Novo: A pipeline for processing duplex sequencing data.
|
2024-12-15 |
|
probeit
|
public |
Probeit: a probe designer for detecting and genotyping pathogen!!!
|
2024-12-15 |
|
sneep
|
public |
Identify regulatory non-coding SNPs (rSNPs)
|
2024-12-15 |
|
hydra-multi
|
public |
Hydra detects structural variation breakpoints in both unique and duplicated genomic regions.
|
2024-12-15 |
|
stare-abc
|
public |
Calculate Gene-TF affinities via enhancer-gene interactions
|
2024-12-15 |
|
bwread
|
public |
Read bigwig files quickly into PyRanges or DataFrames
|
2024-12-15 |
|
batvi
|
public |
Detect viral integrations
|
2024-12-15 |
|
difcover
|
public |
Pipeline to identify genomic regions with read coverage differences between pairs of samples
|
2024-12-15 |
|
r-bedtoolsr
|
public |
R package wrapping bedtools
|
2024-12-15 |
|
bioconductor-ndexr
|
public |
NDEx R client library
|
2024-12-15 |
|
r-umi4c
|
public |
Process UMI-4C data from scratch to produce nice plots.
|
2024-12-15 |
|
bioconductor-dupradar
|
public |
Assessment of duplication rates in RNA-Seq datasets
|
2024-12-15 |
|
snikt
|
public |
Identify and remove adapter/systemic contamination in metagenomic sequencing DNA/RNA data.
|
2024-12-15 |
|
genome_updater
|
public |
genome_updater: bash script to download/update snapshots of refseq/genbank
|
2024-12-15 |
|
rascaf
|
public |
No Summary
|
2024-12-15 |
|
demuxlet
|
public |
Genetic multiplexing of barcoded single cell RNA-seq
|
2024-12-15 |
|
fastq_utils
|
public |
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
|
2024-12-15 |
|
soapdenovo-trans
|
public |
No Summary
|
2024-12-15 |
|
minys
|
public |
MinYS allows targeted assembly of bacterial genomes using a reference-guided pipeline.
|
2024-12-15 |
|
pbipa
|
public |
Improved Phased Assembly
|
2024-12-15 |
|
psiclass
|
public |
Simultaneous multi-sample transcript assembler for RNA-seq data
|
2024-12-15 |
|
galaxy-ml
|
public |
APIs for Galaxy machine learning tools
|
2024-12-15 |
|
perl-set-intervaltree
|
public |
An interval tree implementation in PERL.
|
2024-12-15 |
