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predictosaurus
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public |
Predictosaurus is a command-line tool designed for uncertainty-aware haplotype-based genomic variant effect prediction.
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2025-03-25 |
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flexsweep
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public |
A versatile tool for detecting selective sweeps
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2025-03-25 |
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parnas
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public |
Representative taxon sampling from phylogenetic trees
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2025-03-25 |
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drug2cell
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public |
This is a collection of utility functions for gene group activity evaluation in scanpy
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2025-03-25 |
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mirscore
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public |
miRScore: A rapid and precise microRNA validation tool
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2025-03-25 |
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lrge
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public |
Genome size estimation from long read overlaps
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2025-03-25 |
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genera
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public |
Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra
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2025-03-25 |
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tipp
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public |
TIPPo: A User-Friendly Tool for De Novo Assembly of Organellar Genomes with HiFi Data
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2025-03-25 |
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snp2cell
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public |
A package for finding enriched regulatory networks from GWAS and single cell data.
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2025-03-25 |
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vgorient
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public |
Scripts for processing mitochondrial graphs.
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2025-03-25 |
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ntsm
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public |
ntsm - Nucleotide Sequence/Sample Matcher
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2025-03-25 |
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phyclone
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public |
Accurate Bayesian reconstruction of cancer phylogenies from bulk sequencing.
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2025-03-25 |
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absense
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public |
abSENSE: a method to interpret undetected homologs
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2025-03-25 |
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hifiadapterfilt
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public |
Convert .bam to .fastq and remove reads with remnant PacBio HiFi adapter sequences
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2025-03-25 |
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panta
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public |
PanTA - pan-genome pipeline
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2025-03-25 |
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ega-cryptor
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public |
EGA Cryptor v2.0.0 is a tool designed to encrypt files compliant with the European Genome-phenome Archive (EGA)
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2025-03-25 |
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wipertools
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public |
A suite of programs that drop or fix pesky lines in FASTQ files and that split FASTQ files into chunks or merge them.
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2025-03-25 |
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mzspeclib
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public |
HUPO-PSI Spectral library format
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2025-03-25 |
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sprinter
|
public |
Single-cell Proliferation Rate Inference in Non-homogeneous Tumours through Evolutionary Routes (SPRINTER)
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2025-03-25 |
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neptune-signature
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public |
Neptune: Genomic Signature Discovery
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2025-03-25 |
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search_ncbi
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public |
A package for searching and processing NCBI data
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2025-03-25 |
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snpick
|
public |
A fast and memory-efficient tool for SNP extraction from genomic alignments.
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2025-03-25 |
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mzpaf
|
public |
HUPO-PSI Peptide peak annotation format
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2025-03-25 |
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gretl
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public |
gretl is a tool to compute a range of statistics on variation graphs in gfa format.
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2025-03-25 |
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r-locuszoomr
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public |
Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.
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2025-03-25 |
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kestrel
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public |
Mapping-free variant caller for short-read Illumina data
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2025-03-25 |
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tttrlib
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public |
A file format agnostic library for time-resolved imaging and spectroscopic data.
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2025-03-25 |
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biobb_mem
|
public |
Biobb_mem is the Biobb module for membrane structure analysis.
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2025-03-25 |
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gzrt
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public |
Unofficial build of the gzip Recovery Toolkit aka gzrecover.
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2025-03-25 |
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lamps
|
public |
Liverpool Annotation of metabolites using Mass Spectrometry
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2025-03-25 |
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r-remapenrich
|
public |
Bioinformatics tools to compute statistical enrichment of geonomic regions for ReMap peaks
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2025-03-25 |
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minimac4
|
public |
Computationally efficient genotype imputation
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2025-03-25 |
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halfdeep
|
public |
Automated detection of intervals covered at half depth by sequenced reads.
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2025-03-25 |
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orthodb
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public |
Interface to OrthoDB REST API.
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2025-03-25 |
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gaftools
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public |
gaftools is a fast and comprehensive toolkit designed for processing pangenome alignments in GAF format
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2025-03-25 |
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fc
|
public |
Accurate Assembly of Full-length Consensus for Viral Quasispecies.
|
2025-03-25 |
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bubblegun
|
public |
BubbleGun is a tool for detecting bubbles and superbubbles in GFA graphs, and reports them and their nested structures.
|
2025-03-25 |
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rotate
|
public |
Simple program to rotate a circular sequence to start at a given position or string.
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2025-03-25 |
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reseek
|
public |
Protein structure alignment and search algorithm.
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2025-03-25 |
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ntstat
|
public |
a toolkit for statistical analysis of k-mer frequency and depth
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2025-03-25 |
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eagle2
|
public |
The Eagle software estimates haplotype phase either within a genotyped cohort or using a phased reference panel.
|
2025-03-25 |
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meta-neuro
|
public |
Medial Tractography Analysis (MeTA)
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2025-03-25 |
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msa4u
|
public |
A simple visualisation tool for Multiple Sequence Alignment.
|
2025-03-25 |
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amplici
|
public |
AmpliCI: Cluster amplicon sequences in a fastq file with or without UMIs.
|
2025-03-25 |
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liana
|
public |
LIANA+: a one-stop-shop framework for cell-cell communication
|
2025-03-25 |
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phenograph
|
public |
Graph-based clustering for high-dimensional single-cell data.
|
2025-03-25 |
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stxtyper
|
public |
Accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
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2025-03-25 |
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jarvis3
|
public |
Improved encoder for genomic sequences.
|
2025-03-25 |
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deepchopper-cli
|
public |
A CLI for Genomic Language Model for Chimera Artifact Detection in Nanopore Direct RNA Sequencing.
|
2025-03-25 |
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pyscenic
|
public |
Python implementation of the SCENIC pipeline for transcription factor inference from single-cell transcriptomics experiments.
|
2025-03-25 |
