|
jupiterplot
|
public |
Circos Assembly Consistency (Jupiter) plot
|
2024-07-18 |
|
cancerit-allelecount
|
public |
Support code for NGS copy number algorithms
|
2024-07-17 |
|
longphase
|
public |
LongPhase is an ultra-fast program for simultaneously co-phasing SNPs, small indels, large SVs, and (5mC) modifications for Nanopore and PacBio platforms.
|
2024-07-17 |
|
liftoff
|
public |
An accurate GFF3/GTF lift over pipeline
|
2024-07-16 |
|
graftm
|
public |
GraftM is a pipeline used for identifying and classifying marker gene reads from metagenomic datasets
|
2024-07-16 |
|
gtdb_to_taxdump
|
public |
GTDB database utility scripts
|
2024-07-15 |
|
bioconductor-maaslin2
|
public |
"Multivariable Association Discovery in Population-scale Meta-omics Studies"
|
2024-07-15 |
|
dropseq_tools
|
public |
Package for the analysis of Drop-seq data developed by Jim Nemesh in the McCarroll Lab
|
2024-07-15 |
|
influx-si-data-manager
|
public |
Data manager for handling influx_si inputs on Workflow4Metabolomics (usegalaxy.org)
|
2024-07-15 |
|
viguno
|
public |
Lookup OMIM genes and HPO terms and compute similarities
|
2024-07-15 |
|
hicap
|
public |
In silico typing of the H. influenzae capsule locus
|
2024-07-15 |
|
flumut
|
public |
A tool to search for molecular markers with potential impact on the biological characteristics of Influenza A viruses of the A(H5N1) subtype.
|
2024-07-15 |
|
jms-metabolite-services
|
public |
conversion, search of metabolic models and metabolomics data
|
2024-07-14 |
|
phold
|
public |
Phage annotation using protein structures
|
2024-07-13 |
|
aniclustermap
|
public |
A tool for drawing ANI clustermap between all-vs-all microbial genomes
|
2024-07-13 |
|
mmseqs2-server
|
public |
Server for MMseqs2, Foldseek and ColabFold
|
2024-07-11 |
|
nextalign
|
public |
Viral genome alignment
|
2024-07-11 |
|
nextclade2
|
public |
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
|
2024-07-10 |
|
physher
|
public |
A multi-algorithmic framework for phylogenetic inference
|
2024-07-10 |
|
phylornn
|
public |
PhyloRNN
|
2024-07-09 |
|
test
|
public |
Test recipe, copied from the seqtk recipe
|
2024-07-09 |
|
constava
|
public |
Calculate conformational states probability and variability from a protein structure ensemble
|
2024-07-09 |
|
ufcg
|
public |
UFCG pipeline provides methods for a genome-wide taxonomic profiling and annotation of your own biological sequences of Fungi.
|
2024-07-08 |
|
fq
|
public |
fq is a library to generate and validate FASTQ file pairs.
|
2024-07-08 |
|
crispector2
|
public |
Accurate estimation of off-target editing activity from comparative NGS data
|
2024-07-08 |
|
nextstrain
|
public |
Nextstrain toolchain (meta-package)
|
2024-07-07 |
|
b2btools
|
public |
The bio2Byte software suite to predict protein biophysical properties
|
2024-07-07 |
|
syny
|
public |
Genome collinearity inferences
|
2024-07-06 |
|
harmonypy
|
public |
A data integration algorithm.
|
2024-07-05 |
|
varcode
|
public |
Variant annotation in Python
|
2024-07-03 |
|
arriba
|
public |
Fast and accurate gene fusion detection from RNA-Seq data
|
2024-07-03 |
|
svist4get
|
public |
A simple visualization tool for genomic tracks from sequencing experiments
|
2024-07-03 |
|
vcf2circos
|
public |
A python package based on Plotly to help generate Circos plots from a VCF file or a JSON configuration file.
|
2024-07-03 |
|
pyclone-vi
|
public |
A fast method for inferring clonal population structure
|
2024-07-03 |
|
bwakit
|
public |
A self-consistent installation-free package of scripts and precompiled binaries, providing an end-to-end solution to read mapping
|
2024-07-02 |
|
mintie
|
public |
Method for Identifying Novel Transcripts and Isoforms
using Equivalence classes, in cancer and rare disease.
|
2024-07-02 |
|
r-sigminer
|
public |
Genomic alterations including single nucleotide substitution, copy number alteration, etc. are the major force for cancer initialization and development. Due to the specificity of molecular lesions caused by genomic alterations, we can generate characteristic alteration spectra, called 'signature' (Wang, Shixiang, et al. (2020) <DOI:10.1101/2020.04.27.20082404> & Alexandrov, Ludmil B., et al. (2020) <DOI:10.1038/s41586-020-1943-3> & Macintyre, Geoff, et al. (2018) <DOI:10.1038/s41588-018-0179-8>). This package helps users to extract, analyze and visualize signatures from genomic alteration records, thus providing new insight into cancer study.
|
2024-07-01 |
|
syngap
|
public |
SynGAP: Synteny-based Gene structure Annotation Polisher
|
2024-07-01 |
|
gangstr
|
public |
GangSTR is a tool for genome-wide profiling tandem repeats from short reads.
|
2024-06-28 |
|
tetrimmer
|
public |
TETrimmer is designed to replace and assist TE manual curation.
|
2024-06-28 |
|
bohra
|
public |
Pipeline for analysing Illumina data for microbiological public health.
|
2024-06-28 |
|
rnaquast
|
public |
rnaQUAST is a tool for evaluating RNA-Seq assemblies using reference genome and gene database. In addition, rnaQUAST is also capable of estimating gene database coverage by raw reads and de novo quality assessment using third-party software.
|
2024-06-25 |
|
idr
|
public |
The IDR (Irreproducible Discovery Rate) framework is a unified approach to measure the reproducibility of findings identified from replicate experiments and provide highly stable thresholds based on reproducibility.
|
2024-06-25 |
|
tandem-genotypes
|
public |
Find tandem repeat length changes, from "long" DNA reads aligned to a genome
|
2024-06-25 |
|
spapros
|
public |
Probe set selection for targeted spatial transcriptomics.
|
2024-06-24 |
|
snakemake-storage-plugin-zenodo
|
public |
A Snakemake storage plugin for reading from and writing to zenodo.org
|
2024-06-24 |
|
artic-tools
|
public |
A set of tools for working with the ARTIC bioinformatic pipeline.
|
2024-06-21 |
|
concoct
|
public |
Clustering cONtigs with COverage and ComposiTion
|
2024-06-21 |
|
bioframe
|
public |
Pandas utilities for tab-delimited and other genomic files
|
2024-06-20 |
|
usearch
|
public |
USEARCH is a unique sequence analysis tool which offers search and clustering algorithms that are often orders of magnitude faster than BLAST.
|
2024-06-19 |
