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pcdl
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public |
physicell data loader (pcdl) provides a platform independent, python3 based, pip installable interface to transform output, generated with the PhysiCell agent based modeling framework, into standard formats.
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2025-07-23 |
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ndex2
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public |
Nice CX Python includes a client and a data model.
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2025-07-23 |
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ervmancer
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public |
Quantifies HERV short read RNA sequencing expression data
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2025-07-23 |
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sylph-tax
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public |
Integrating taxonomic information into the sylph metagenome profiler.
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2025-07-23 |
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biocode
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public |
Bioinformatics code libraries and scripts.
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2025-07-22 |
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rsidx
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public |
Library for indexing VCF files for random access searches by rsID.
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2025-07-22 |
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alen
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public |
Simple terminal sequence alignment viewer
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2025-07-22 |
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crocodeel
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public |
CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data
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2025-07-22 |
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agat
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public |
Another Gff Analysis Toolkit (AGAT). Suite of tools to handle gene annotations in any GTF/GFF format.
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2025-07-22 |
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gpsw
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public |
GPSW is a tool for analysing Global Protein Stability Profiling data.
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2025-07-22 |
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bigwig-nim
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public |
Command-line querying+conversion of bigwigs
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2025-07-22 |
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goalign
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public |
goalign is a set of command line tools to manipulate multiple alignments
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2025-07-22 |
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r-tidyheatmap
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public |
This is a tidy implementation for heatmap. At the moment it is based on the (great) package 'ComplexHeatmap'. The goal of this package is to interface a tidy data frame with this powerful tool. Some of the advantages are: Row and/or columns colour annotations are easy to integrate just specifying one parameter (column names). Custom grouping of rows is easy to specify providing a grouped tbl. For example: df %>% group_by(...). Labels size adjusted by row and column total number. Default use of Brewer and Viridis palettes.
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2025-07-22 |
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vcfbub
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public |
Popping bubbles in vg deconstruct VCFs
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2025-07-22 |
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parasail-python
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public |
Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms.
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2025-07-22 |
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pantax
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public |
Strain-level metagenomic profiling using pangenome graphs with PanTax
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2025-07-22 |
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pilea
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public |
Pilea: profiling bacterial growth dynamics from metagenomes with sketching
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2025-07-22 |
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svtopo
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public |
Complex structural variant visualization for HiFi sequencing data: extraction tool
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2025-07-22 |
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nextpolish
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public |
Fast and accurately polish the genome generated by long reads
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2025-07-22 |
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r-bpcells
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public |
Efficient operations for single cell ATAC-seq fragments and RNA counts matrices. Interoperable with standard file formats, and introduces efficient bit-packed formats that allow large storage savings and increased read speeds.
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2025-07-22 |
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svtopovz
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public |
Complex structural variant visualization for HiFi sequencing data: plotting tool.
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2025-07-22 |
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cooler
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public |
Sparse binary format for genomic interaction matrices.
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2025-07-22 |
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nextpolish2
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public |
Repeat-aware polishing genomes assembled using HiFi long reads.
|
2025-07-21 |
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bbmap
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public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
|
2025-07-21 |
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bio-unicorn
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public |
A tool for computing statistics on short read alignments.
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2025-07-21 |
