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graphaligner
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public |
Sequence to graph aligner for long reads
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2024-12-02 |
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baitfisher
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public |
No Summary
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2024-12-02 |
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hictkpy
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public |
Python bindings for hictk: read and write .cool and .hic files directly from Python
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2024-12-01 |
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ropebwt3
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public |
Constructs the FM-index of a large DNA sequence set and searches for matches against the FM-index.
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2024-12-01 |
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palantir
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public |
Palantir for modeling continuous cell state and cell fate choices in single cell data
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2024-12-01 |
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yacht
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public |
YACHT is a mathematically rigorous hypothesis test for the presence or absence of organisms in a metagenomic sample, based on average nucleotide identity (ANI).
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2024-11-29 |
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perl-test-utf8
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public |
handy utf8 tests
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2024-11-29 |
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jalview
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public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
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2024-11-29 |
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virsorter
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public |
VirSorter2 -- A multi-classifier, expert-guided approach to detect diverse DNA and RNA virus genomes
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2024-11-29 |
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pytximport
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public |
pytximport - gene count estimation from transcript-level quantification
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2024-11-29 |
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pegas
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public |
PeGAS is a Snakemake pipeline for genome analysis
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2024-11-29 |
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brawn
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public |
A tool for handling repetitive insertions into sequence alignments.
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2024-11-28 |
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hicexplorer
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public |
Set of programs to process, analyze and visualize Hi-C and capture Hi-C data
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2024-11-28 |
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strelka
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public |
Strelka calls somatic and germline small variants from mapped sequencing reads
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2024-11-28 |
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repeatmodeler
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public |
RepeatModeler is a de-novo repeat family identification and modeling package.
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2024-11-28 |
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vclust
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public |
Fast and accurate tool for calculating ANI and clustering virus genomes and metagenomes.
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2024-11-27 |
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crisprme
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public |
CRISPRme, tool package for CRISPR experiments assessment and analysis.
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2024-11-27 |
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clusty
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public |
Clusty is a tool for large-scale data clustering.
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2024-11-27 |
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kmer-db
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public |
Kmer-db is a fast and memory-efficient tool for estimating evolutionary distances.
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2024-11-27 |
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lz-ani
|
public |
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes
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2024-11-27 |
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spatialleiden
|
public |
Implementation of multiplex Leiden for analysis of spatial omics data.
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2024-11-27 |
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cojac
|
public |
Command-line tools to analyse co-occurrence of mutations on amplicons.
|
2024-11-27 |
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arvados-python-client
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public |
Python API for Arvados
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2024-11-26 |
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genera
|
public |
Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra
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2024-11-25 |
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agc
|
public |
Assembled Genomes Compressor (AGC) is a tool designed to compress collections of de-novo assembled genomes. It can be used for various types of datasets: short genomes (viruses) as well as long (humans).
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2024-11-25 |
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cobs
|
public |
Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
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2024-11-25 |
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omamer
|
public |
OMAmer - tree-driven and alignment-free protein assignment to sub-families
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2024-11-25 |
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biobb_vs
|
public |
Biobb_vs is the Biobb module collection to perform virtual screening studies.
|
2024-11-25 |
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damidseq_pipeline
|
public |
An automated pipeline for processing DamID sequencing datasets.
|
2024-11-25 |
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vgorient
|
public |
Scripts for processing mitochondrial graphs.
|
2024-11-25 |
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hmftools-sigs
|
public |
Fits sample SNV counts to trinucleotide signature definitions.
|
2024-11-25 |
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stranger
|
public |
Annotate VCF files with STR variants with pathogenicity implications.
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2024-11-25 |
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straglr
|
public |
Short-tandem repeat genotyping using long reads
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2024-11-25 |
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absense
|
public |
abSENSE: a method to interpret undetected homologs
|
2024-11-25 |
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clinker-py
|
public |
Gene cluster comparison figure generator
|
2024-11-25 |
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ashlar
|
public |
Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
|
2024-11-25 |
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hifiadapterfilt
|
public |
Convert .bam to .fastq and remove reads with remnant PacBio HiFi adapter sequences
|
2024-11-25 |
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halfdeep
|
public |
Automated detection of intervals covered at half depth by sequenced reads.
|
2024-11-23 |
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scspectra
|
public |
Supervised discovery of interpretable gene programs from single-cell data.
|
2024-11-22 |
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meteor
|
public |
Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems.
|
2024-11-22 |
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panta
|
public |
PanTA - pan-genome pipeline
|
2024-11-22 |
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htsinfer
|
public |
HTSinfer infers metadata from Illumina high throughput sequencing (HTS) data
|
2024-11-22 |
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simug
|
public |
A simple, flexible, and powerful tool to simulate genome sequences with pre-defined or random genomic variants.
|
2024-11-22 |
|
ega-cryptor
|
public |
EGA Cryptor v2.0.0 is a tool designed to encrypt files compliant with the European Genome-phenome Archive (EGA)
|
2024-11-22 |
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biobb_structure_utils
|
public |
Biobb_structure_utils is the Biobb module collection to modify or extract information from a PDB structure file.
|
2024-11-21 |
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biobb_pytorch
|
public |
biobb_pytorch is the Biobb module collection to create and train ML & DL models.
|
2024-11-21 |
|
pdivas
|
public |
PDIVAS: Pathogenicity predictor of Deep-Intronic Variants causing Aberrant Splicing
|
2024-11-21 |
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biobb_pmx
|
public |
Biobb_pmx is the Biobb module collection to perform PMX (http://pmx.mpibpc.mpg.de) executions.
|
2024-11-21 |
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liana
|
public |
LIANA+: a one-stop-shop framework for cell-cell communication
|
2024-11-21 |
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hmftools-isofox
|
public |
Isofox is a tool for counting fragment support for identifying and counting gene and transcript features using genome aligned RNASeq data in tumor samples.
|
2024-11-21 |
