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tinscan
|
public |
Find alignment signatures characteristic of transposon insertion sites.
|
2024-11-05 |
|
perl-unicode-normalize
|
public |
Unicode Normalization Forms
|
2024-11-05 |
|
perl-unicode-map
|
public |
Map charsets from and to UTF-16 unicode
|
2024-11-05 |
|
perl-bloom-faster
|
public |
Perl extension for the c library libbloom.
|
2024-11-05 |
|
perl-json-parse
|
public |
Read JSON into a Perl variable
|
2024-11-05 |
|
perl-crypt-openssl-random
|
public |
No Summary
|
2024-11-05 |
|
perl-ipc-sharelite
|
public |
Lightweight interface to shared memory
|
2024-11-05 |
|
perl-heap-simple-xs
|
public |
No Summary
|
2024-11-05 |
|
perl-math-cdf
|
public |
Generate probabilities and quantiles from several statistical probability functions
|
2024-11-05 |
|
perl-crypt-openssl-rsa
|
public |
RSA encoding and decoding, using the openSSL libraries
|
2024-11-05 |
|
perl-file-copy-recursive
|
public |
Perl extension for recursively copying files and directories
|
2024-11-05 |
|
perl-filesys-df
|
public |
Perl extension for filesystem disk space information.
|
2024-11-05 |
|
perl-unicode-utf8
|
public |
Encoding and decoding of UTF-8 encoding form
|
2024-11-05 |
|
perl-math-random
|
public |
Random Number Generators
|
2024-11-05 |
|
ascat
|
public |
ASCAT is a method to derive copy number profiles of tumour cells,
accounting for normal cell admixture and tumour aneuploidy (Figure 1).
ASCAT infers tumour purity (the fraction of tumour cells) and ploidy (the
amount of DNA per tumour cell, expressed as multiples of haploid genomes)
from SNP array or massively parallel sequencing data, and calculates
whole-genome allele-specific copy number profiles (the number of copies of
both parental alleles for all SNP loci across the genome).
|
2024-11-04 |
|
mimeo
|
public |
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
|
2024-11-04 |
|
bioconductor-protgenerics
|
public |
Generic infrastructure for Bioconductor mass spectrometry packages
|
2024-11-03 |
|
seqkit
|
public |
a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
|
2024-11-03 |
|
sentieon
|
public |
Accelerated performance bioinformatics tools for mapping and variant calling
|
2024-11-02 |
|
taxonkit
|
public |
A Cross-platform and Efficient NCBI Taxonomy Toolkit
|
2024-11-02 |
|
csvtk
|
public |
A cross-platform, efficient, practical CSV/TSV toolkit
|
2024-11-02 |
|
fgbio
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2024-11-02 |
|
hmftools-purple
|
public |
PURPLE is a purity ploidy estimator for tumor samples.
|
2024-10-31 |
|
tirmite
|
public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
|
2024-10-31 |
|
gatk4
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
|
perl-list-moreutils-xs
|
public |
Provide the stuff missing in List::Util in XS
|
2024-10-31 |
|
kleborate
|
public |
Kleborate: a tool for typing and screening pathogen genome assemblies
|
2024-10-30 |
|
perl-datetime-locale
|
public |
Localization support for DateTime.pm
|
2024-10-30 |
|
perl-term-table
|
public |
Format a header and rows into a table
|
2024-10-30 |
|
pbmm2
|
public |
A minimap2 frontend for PacBio native data formats
|
2024-10-29 |
|
nf-core
|
public |
Python package with helper tools for the nf-core community.
|
2024-10-29 |
|
pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
|
2024-10-29 |
|
ucsc-bedgraphtobigwig
|
public |
Convert a bedGraph file to bigWig format.
|
2024-10-29 |
|
ucsc-wigtobigwig
|
public |
Convert ascii format wig file (in fixedStep, variableStep).
|
2024-10-29 |
|
kaptive
|
public |
Reports information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies.
|
2024-10-28 |
|
lima
|
public |
lima - The PacBio Barcode Demultiplexer
|
2024-10-28 |
|
bioconda-utils
|
public |
Utilities for building and managing bioconda recipes.
|
2024-10-28 |
|
ucsc-pslcdnafilter
|
public |
Filter cDNA alignments in psl format. Filtering criteria are comparative, selecting near best in genome alignments for each given cDNA and non-comparative, based only on the quality of an individual alignment.
|
2024-10-28 |
|
starfish
|
public |
Standardized analysis pipeline for image-based transcriptomics.
|
2024-10-28 |
|
masurca
|
public |
MaSuRCA (Maryland Super-Read Celera Assembler) genome assembly software. MaSuRCA requires Illumina data, and supports third-generation PacBio/Nanopore MinION reads for hybrid assembly.
|
2024-10-28 |
|
shortstack
|
public |
ShortStack: Comprehensive annotation and quantification of small RNA genes
|
2024-10-28 |
|
nanoqc
|
public |
Create fastQC-like plots for Oxford Nanopore sequencing data.
|
2024-10-28 |
|
lofreq
|
public |
A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data
|
2024-10-26 |
|
fastqe
|
public |
A emoji based bioinformatics command line tool.
|
2024-10-25 |
|
ucsc-blat
|
public |
Standalone BLAT v. 39x1 fast sequence search command line tool.
|
2024-10-25 |
|
ucsc-twobitinfo
|
public |
Get information about sequences in a .2bit file.
|
2024-10-25 |
|
ucsc-twobittofa
|
public |
Convert all or part of .2bit file to fasta.
|
2024-10-25 |
|
ucsc-fatotwobit
|
public |
Convert DNA from fasta to 2bit format.
|
2024-10-25 |
|
augustus
|
public |
AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments.
|
2024-10-24 |
|
spaln
|
public |
Map and align a set of cDNA/EST or protein sequences onto a genome
|
2024-10-24 |
