|
quantpi
|
public |
A general profiling system focus on robust microbiome research
|
2025-03-25 |
|
ribodetector
|
public |
Accurate and rapid RiboRNA sequences Detector based on deep learning
|
2025-03-25 |
|
nwalign3
|
public |
Updated version of nwalign with Python 3.x compatibility.
|
2025-03-25 |
|
pyright
|
public |
Type checker for the Python language
|
2025-03-25 |
|
sshtk
|
public |
SSH toolkit
|
2025-03-25 |
|
gfatools
|
public |
Tools for manipulating sequence graphs in the GFA and rGFA formats
|
2025-03-25 |
|
cloudspades
|
public |
cloudSPAdes assembly of synthetic long reads using de Bruijn graphs
|
2025-03-25 |
|
pyani
|
public |
pyani provides a package and script for calculation of genome-scale average nucleotide identity.
|
2025-03-25 |
|
metamlp
|
public |
MetaMLP is a fast approach to annotate metagenomic datasets against a protein reference database.
|
2025-03-25 |
|
traitar
|
public |
From genomes to phenotypes: Traitar, the microbial trait analyzer
|
2025-03-25 |
|
r-vita
|
public |
Implements the novel testing approach by Janitza et al.(2015) <http://nbn-resolving.de/urn/resolver.pl?urn=nbn:de:bvb:19-epub-25587-4> for the permutation variable importance measure in a random forest and the PIMP-algorithm by Altmann et al.(2010) <doi:10.1093/bioinformatics/btq134>. Janitza et al.(2015) <http://nbn-resolving.de/urn/resolver.pl?urn=nbn:de:bvb:19-epub-25587-4> do not use the "standard" permutation variable importance but the cross-validated permutation variable importance for the novel test approach. The cross-validated permutation variable importance is not based on the out-of-bag observations but uses a similar strategy which is inspired by the cross-validation procedure. The novel test approach can be applied for classification trees as well as for regression trees. However, the use of the novel testing approach has not been tested for regression trees so far, so this routine is meant for the expert user only and its current state is rather experimental.
|
2025-03-25 |
|
r-codaseq
|
public |
No Summary
|
2025-03-25 |
|
r-packfor
|
public |
No Summary
|
2025-03-25 |
|
r-adespatial
|
public |
Tools for the multiscale spatial analysis of multivariate data. Several methods are based on the use of a spatial weighting matrix and its eigenvector decomposition (Moran's Eigenvectors Maps, MEM). Several approaches are described in the review Dray et al (2012) <doi:10.1890/11-1183.1>.
|
2025-03-25 |
|
r-adegraphics
|
public |
Graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.
|
2025-03-25 |
|
skesa
|
public |
Strategic Kmer Extension for Scrupulous Assemblies
|
2025-03-25 |
|
fastani
|
public |
FastANI is developed for fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI).
|
2025-03-25 |
|
r-virfinder
|
public |
No Summary
|
2025-03-25 |
|
metapi
|
public |
A general metagenomics data mining system focus on robust microbiome research
|
2025-03-25 |
|
soapnuke
|
public |
SOAPnuke is a novel analysis tool developed for ultrafast quality control and preprocessing of high throughput sequencing (HTS) data.
|
2025-03-25 |
|
assembly-stats
|
public |
Get assembly statistics from FASTA and FASTQ files, [email protected]
|
2025-03-25 |
|
seqtk
|
public |
Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format
|
2025-03-25 |
|
yaml-cpp
|
public |
YAML parser and emitter in C++, writtend around the YAML 1.2 spec
|
2025-03-25 |
|
msort
|
public |
msort, sort file rows by multiple field, written by Ruan Jue<[email protected]>
|
2025-03-25 |
|
fastp
|
public |
A FASTQ preprocessor with full features (QC/adapters/trimming/filtering/splitting...)
|
2025-03-25 |
