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fermi2
|
public |
Fermi2 focuses on the exploration of FMD-index as a graph.
|
2025-09-09 |
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htsbox
|
public |
HTSbox is a fork of early HTSlib. It is a collection of small experimental tools manipulating HTS-related files.
|
2025-09-09 |
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bfc
|
public |
BFC is a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data.
|
2025-09-09 |
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velvet
|
public |
Sequence Assembler for short reads
|
2025-09-09 |
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svdb
|
public |
structural variant database software
|
2025-09-09 |
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portcullis
|
public |
Splice junction analysis and filtering from BAM files
|
2025-09-09 |
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locarna
|
public |
Multiple alignment of RNAs
|
2025-09-09 |
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popdel
|
public |
Fast structural deletion calling on population-scale short read paired-end germline WGS data.
|
2025-09-09 |
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kaiju
|
public |
Fast and sensitive taxonomic classification for metagenomics
|
2025-09-09 |
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groot
|
public |
A tool for resistome profiling of metagenomic samples.
|
2025-09-09 |
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bioconvert
|
public |
Convert between bioinformatics formats
|
2025-09-08 |
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wiggletools
|
public |
The WiggleTools package allows genomewide data files to be manipulated as numerical functions, equipped with all the standard functional analysis operators (sum, product, product by a scalar, comparators), and derived statistics (mean, median, variance, stddev, t-test, Wilcoxon's rank sum test, etc).
|
2025-09-08 |
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adapterremoval
|
public |
The AdapterRemoval v2 tool for merging and clipping reads.
|
2025-09-08 |
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perl-convert-binary-c
|
public |
Binary Data Conversion using C Types
|
2025-09-08 |
|
perl-json-xs
|
public |
JSON serialising/deserialising, done correctly and fast
|
2025-09-08 |
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nextflow
|
public |
A DSL for data-driven computational pipelines http://nextflow.io
|
2025-09-08 |
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pear
|
public |
paired-end read merger
|
2025-09-07 |
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igv
|
public |
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics
data and annotations.
|
2025-09-07 |
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multiqc
|
public |
Create aggregate bioinformatics analysis reports across many samples and tools.
|
2025-09-06 |
|
mageck
|
public |
MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout), an algorithm to process, QC, analyze and visualize CRISPR screening data.
|
2025-09-05 |
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scalpel
|
public |
Sensitive detection of INDELs (INsertions and DELetions)
|
2025-09-04 |
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r-dartr
|
public |
Functions are provided that facilitate the import and analysis of SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. The main focus is on data generated by DarT (Diversity Arrays Technology). However, once SNP or related fragment presence/absence data from any source is imported into a genlight object many of the functions can be used. Functions are available for input and output of SNP and silicodart data, for reporting on and filtering on various criteria (e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency). Advanced filtering is based on Linkage Disequilibrium and HWE (Hardy-Weinberg equilibrium). Other functions are available for visualization after PCoA (Principle Coordinate Analysis), or to facilitate transfer of data between genlight/genind objects and newhybrids, related, phylip, structure, faststructure packages.
|
2025-09-04 |
|
phame
|
public |
A tool to derive SNP matrices and phylogenetic tree from raw reads, contigs, and full genomes.
|
2025-09-04 |
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jalview
|
public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
|
2025-09-04 |
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rseqc
|
public |
QC package for RNA-seq data.
|
2025-09-04 |
