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lotus2
|
public |
LotuS2 is a lightweight complete 16S/18S/ITS pipeline
|
2024-11-02 |
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fgbio-minimal
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2024-11-02 |
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kalamari
|
public |
A curated database of completed assemblies with taxonomy IDs
|
2024-11-02 |
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derna
|
public |
RNA sequence design for a target protein sequence.
|
2024-10-31 |
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hictkpy
|
public |
Python bindings for hictk: read and write .cool and .hic files directly from Python
|
2024-10-31 |
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hybpiper
|
public |
HybPiper is a suite of Python scripts/modules for targeted sequence capture.
|
2024-10-31 |
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piawka
|
public |
The powerful AWK script to calculate population statistics in VCF files with support for varying ploidy and missing data
|
2024-10-31 |
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phykit
|
public |
PhyKIT is a UNIX shell toolkit for processing and analyzing phylogenomic data.
|
2024-10-31 |
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aster
|
public |
Accurate Species Tree EstimatoR series; a family of optimation algorithms
for species tree inference implemented in C++
|
2024-10-31 |
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tirmite
|
public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
|
2024-10-31 |
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seqscreen
|
public |
SeqScreen was created to sensitively assign taxonomic classifications, functional annotations, and Functions of Sequences of Concern (FunSoCs) to single, short DNA sequences or open reading frames.
|
2024-10-31 |
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cell2cell
|
public |
Inferring cell-cell interactions from transcriptomes with cell2cell
|
2024-10-31 |
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pbjasmine
|
public |
jasmine
|
2024-10-31 |
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gatk4-spark
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
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gatk4
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
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gcnvkernel
|
public |
Python package to support GATK gCNV calling.
|
2024-10-31 |
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aletsch
|
public |
Aletsch is an accurate, versatile assembler for multiple RNA-seq samples.
|
2024-10-31 |
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sgdemux
|
public |
Tool for demultiplexing sequencing data generated on Singular Genomics' sequencing instruments.
|
2024-10-31 |
|
perl-list-moreutils-xs
|
public |
Provide the stuff missing in List::Util in XS
|
2024-10-31 |
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bioconductor-bambu
|
public |
Context-Aware Transcript Quantification from Long Read RNA-Seq data
|
2024-10-30 |
|
fmsi
|
public |
FMSI - memory efficient k-mer set index based on masked superstrings and Burrows-Wheeler transform.
|
2024-10-30 |
|
kleborate
|
public |
Kleborate: a tool for typing and screening pathogen genome assemblies
|
2024-10-30 |
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spring
|
public |
Spring is a compression tool for Fastq files
|
2024-10-30 |
|
r-recetox-aplcms
|
public |
apLCMS is a software which generates a feature table from a batch of LC/MS spectra. A modified fork of the original apLCMS by Tianwei Yu.
|
2024-10-30 |
|
scirpy
|
public |
A Scanpy extension for analyzing single-cell T-cell and B-cell receptor (TCR/BCR) sequencing data.
|
2024-10-30 |
|
r-mfassignr
|
public |
The MFAssignR package was designed for multi-element molecular formula (MF)
assignment of ultrahigh resolution mass spectrometry measurements.
A number of tools for internal mass recalibration, MF assignment, signal-to-noise evaluation,
and unambiguous formula selections are provided.
|
2024-10-30 |
|
ncbi-stxtyper
|
public |
StxTyper identifies and types Stx operons from assembled genomic sequence.
|
2024-10-30 |
|
r-liger
|
public |
Uses an extension of nonnegative matrix factorization to identify shared and dataset-specific factors. See Welch J, Kozareva V, et al (2019) <doi:10.1016/j.cell.2019.05.006>, and Liu J, Gao C, Sodicoff J, et al (2020) <doi:10.1038/s41596-020-0391-8> for more details.
|
2024-10-30 |
|
genoflu
|
public |
Influenza data pipeline to automate genotyping assignment.
|
2024-10-30 |
|
perl-datetime-locale
|
public |
Localization support for DateTime.pm
|
2024-10-30 |
|
ampd-up
|
public |
De novo antimicrobial peptide sequence generation with recurrent neural networks
|
2024-10-30 |
|
miniprot
|
public |
Miniprot aligns a protein sequence against a genome with affine gap penalty, splicing and frameshift.
It is primarily intended for annotating protein-coding genes in a new species using known genes from other species.
|
2024-10-30 |
|
perl-term-table
|
public |
Format a header and rows into a table
|
2024-10-30 |
|
doubletdetection
|
public |
Method to detect and enable removal of doublets from single-cell RNA-sequencing.
|
2024-10-30 |
|
phenograph
|
public |
Graph-based clustering for high-dimensional single-cell data.
|
2024-10-29 |
|
stxtyper
|
public |
Accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
|
2024-10-29 |
|
ncbi-amrfinderplus
|
public |
AMRFinderPlus finds antimicrobial resistance and other genes in protein or nucleotide sequences.
|
2024-10-29 |
|
pbmm2
|
public |
A minimap2 frontend for PacBio native data formats
|
2024-10-29 |
|
pyscenic
|
public |
Python implementation of the SCENIC pipeline for transcription factor inference from single-cell transcriptomics experiments.
|
2024-10-29 |
|
nf-core
|
public |
Python package with helper tools for the nf-core community.
|
2024-10-29 |
|
geosketch
|
public |
Geometry-preserving random sampling.
|
2024-10-29 |
|
pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
|
2024-10-29 |
|
pbtk
|
public |
pbtk - PacBio BAM toolkit
|
2024-10-29 |
|
pbmarkdup
|
public |
pbmarkdup - Mark duplicate reads from PacBio sequencing of an amplified library
|
2024-10-29 |
|
ppanggolin
|
public |
PPanGGOLiN: Depicting microbial species diversity via a Partitioned PanGenome Graph
|
2024-10-29 |
|
tides-ml
|
public |
Tool for ORF-calling and ORF-classification using ML approaches.
|
2024-10-29 |
|
pbpigeon
|
public |
PacBio transcript toolkit
|
2024-10-29 |
|
pgscatalog-utils
|
public |
Utilities for working with PGS Catalog API and scoring files
|
2024-10-29 |
|
nordic
|
public |
NORDic: a Network-Oriented package for the Repurposing of Drugs
|
2024-10-29 |
|
sainsc
|
public |
Segmentation-free Analysis of In Situ Capture data.
|
2024-10-29 |
