Jul 29 2025
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spaceranger
Visium Spatial Software Suite for analyzing and visualizing spatial gene and protein expression data
Updated versions:
4.0.1 | Linux 64
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Jul 29 2025
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R
a free software environment for statistical computing and graphics.
Updated versions:
4.4.2 | OS X INTEL
4.4.2 | Linux 64
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Jul 29 2025
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unicycler
Unicycler is an assembly pipeline for bacterial genomes.
Updated versions:
0.5.1 | OS X INTEL
0.5.1 | Linux 64
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Jul 22 2025
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Cell Ranger
a set of analysis pipelines that process Chromium single-cell RNA-seq output to align reads, generate feature-barcode matrices and perform clustering and gene expression analysis.
Updated versions:
9.0.1 | Linux 64
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Jul 18 2025
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UGENE
a free open-source bioinformatics software for macOS, and Linux.
Updated versions:
52.1 | OS X INTEL
52.1 | Linux 64
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Jul 17 2025
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SAIGE
SAIGE is an R package developed with Rcpp for genome-wide association tests in large-scale data sets and biobanks.
Updated versions:
1.4.7 | Linux 64
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Jul 17 2025
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Julia
a flexible dynamic language appropriate for scientific and numerical computing with performance comparable to traditional statically-typed languages.
Updated versions:
1.11.6 | Linux 64
1.11.6_arm | OS X INTEL
1.11.6_intel | OS X INTEL
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Jul 16 2025
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regenie
a C++ program for whole genome regression modelling of large genome-wide association studies.
Updated versions:
4.1.1 | Linux 64
4.1.1 | OS X INTEL
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Jul 15 2025
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BCFtools
a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.
Updated versions:
1.22 | Linux 64
1.22 | OS X INTEL
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Jul 15 2025
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SAMtools
(Sequence Alignment/Map) a generic format for storing large nucleotide sequence alignments that provides various utilities for manipulating alignments, including sorting, merging, indexing and generating alignments in a per-position format.
Updated versions:
1.22.1 | Linux 64
1.22.1 | OS X INTEL
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Jul 09 2025
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Cactus
a reference-free whole-genome multiple alignment program based upon notion of Cactus graphs.
Updated versions:
2.9.9 | Linux 64
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Jul 09 2025
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GATK
(Genome Analysis Toolkit) a software package developed to analyze high-throughput sequencing data capable of taking on projects of any size with a primary focus on variant discovery, genotyping, and data quality assurance.
Updated versions:
4.6.2.0 | Linux 64
4.6.2.0 | OS X INTEL
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