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r-taxonomizr
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public |
Functions for assigning taxonomy to NCBI accession numbers and taxon IDs based on NCBI's accession2taxid and taxdump files. This package allows the user to downloads NCBI data dumps and create a local database for fast and local taxonomic assignment.
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2025-03-25 |
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xpclr
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public |
Code to compute xp-clr values to detect selection as per Chen, Patterson & Reich 2010.
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2025-03-25 |
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perl-local-lib
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public |
create and use a local lib/ for perl modules with PERL5LIB
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2025-03-25 |
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rust-ncbitaxonomy
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public |
A Rust crate for working with a local copy of the NCBI Taxonomy database, which provides utilities for taxonomic filtering.
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2025-03-25 |
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calour
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public |
exploratory and interactive microbiome analyses based on heatmaps
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2025-03-25 |
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mirtrace
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public |
miRTrace is a new quality control and taxonomic tracing tool developed specifically for small RNA sequencing data (sRNA-Seq).
Each sample is characterized by profiling sequencing quality, read length, sequencing depth and miRNA complexity and also the
amounts of miRNAs versus undesirable sequences (derived from tRNAs, rRNAs and sequencing artifacts). In addition to these routine
quality control (QC) analyses, miRTrace can accurately and sensitively resolve taxonomic origins of small RNA-Seq data based on the
composition of clade-specific miRNAs. This feature can be used to detect cross-clade contaminations in typical lab settings. It can
also be applied for more specific applications in forensics, food quality control and clinical diagnosis, for instance tracing the
origins of meat products or detecting parasitic microRNAs in host serum.
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2025-03-25 |
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faststructure
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public |
A variational framework for inferring population structure from SNP genotype data.
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2025-03-25 |
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stream_atac
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public |
STREAM-Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data. Preprocessing steps for single cell atac-seq data.
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2025-03-25 |
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perl-test-script
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public |
Basic cross-platform tests for scripts
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2025-03-25 |
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plantcv
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public |
An image processing package for plant phenotyping.
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2025-03-25 |
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perl-probe-perl
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public |
Information about the currently running perl
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2025-03-25 |
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cgat-apps
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public |
Computational Genomics Analysis Toolkit.
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2025-03-25 |
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ivar
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public |
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
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2025-03-25 |
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sbg-cwl-runner
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public |
A CWL Runner for SBG platform
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2025-03-25 |
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refinem
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public |
A toolbox for improving population genomes.
|
2025-03-25 |
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epa-ng
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public |
Massively parallel phylogenetic placement of genetic sequences
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2025-03-25 |
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nullarbor
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public |
Reads to report pipeline for bacterial isolate NGS data
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2025-03-25 |
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r-rrbgen
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public |
A lightweight limited functionality R bgen read/write library
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2025-03-25 |
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sample-sheet
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public |
An Illumina Sample Sheet parsing library
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2025-03-25 |
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seqlogo
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public |
Python port of the R Bioconductor `seqlogo` package
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2025-03-25 |
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nemo
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public |
Individual-based forward-time genetics simulation software
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2025-03-25 |
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goslimmer
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public |
GOSlimmer transforms GO annotations to a slimmed version of GO
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2025-03-25 |
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goenrichment
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public |
GOEnrichment analyses a set of gene products for GO term enrichment
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2025-03-25 |
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perl-text-template-simple
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public |
Simple text template engine
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2025-03-25 |
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matlock
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public |
Simple tools for working with Hi-C data
|
2025-03-25 |
