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coatran
|
public |
Coalescent tree simulation along a transmission network
|
2024-12-14 |
|
ucsc-maforder
|
public |
order components within a maf file
|
2024-12-14 |
|
maast
|
public |
Microbial agile accurate SNP Typer
|
2024-12-14 |
|
sciphi
|
public |
Single-cell mutation identification via phylogenetic inference
|
2024-12-14 |
|
r-cleangeostreamr
|
public |
Automatic curation of spatially annotated data.
|
2024-12-14 |
|
ucsc-parahub
|
public |
parasol hub server version 12.18
|
2024-12-14 |
|
perl-padwalker
|
public |
play with other peoples' lexical variables
|
2024-12-14 |
|
bambamc
|
public |
lightweight C implementation of name collating BAM file input and BAM file output
|
2024-12-14 |
|
libstatgen
|
public |
Useful set of classes for creating statistical genetic programs.
|
2024-12-14 |
|
svict
|
public |
SViCT is a computational tool for detecting structural variations from cell free DNA (cfDNA) containing low dilutions of circulating tumor DNA (ctDNA).
|
2024-12-14 |
|
pb-dazzler
|
public |
The Dresden Assembler suite -- Pacific Biosciences forks
|
2024-12-14 |
|
perl-set-object
|
public |
Unordered collections (sets) of Perl Objects
|
2024-12-14 |
|
swipe
|
public |
Tool for performing rapid local alignment searches in amino acid or nucleotide sequence databases. It is a highly optimized implementation of the Smith-Waterman algoritm using SIMD parallel computing technology available on common CPUs.
|
2024-12-14 |
|
ucsc-nibfrag
|
public |
Extract part of a nib file as .fa (all bases/gaps lower case by default)
|
2024-12-14 |
|
ucsc-checktablecoords
|
public |
check invariants on genomic coords in table(s).
|
2024-12-14 |
|
ucsc-pslpostarget
|
public |
flip psl strands so target is positive and implicit
|
2024-12-14 |
|
r-phyext2
|
public |
Based on (but not identical to) the no-longer-maintained package 'phyext', provides enhancements to 'phylobase' classes, specifically for use by package 'SigTree'; provides classes and methods which help users manipulate branch-annotated trees (as in 'SigTree'); also provides support for a few other extra features.
|
2024-12-14 |
|
bcalm
|
public |
BCALM 2 is a bioinformatics tool for constructing the compacted de Bruijn graph from sequencing data.
|
2024-12-14 |
|
paladin
|
public |
Protein Alignment and Detection Interface
|
2024-12-14 |
|
scrappie
|
public |
Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
|
2024-12-14 |
|
ucsc-pslpairs
|
public |
join paired ends in psl alignments
|
2024-12-14 |
|
metacortex
|
public |
MetaCortex is an assembler for metagenomic, or environmental sequence data.
|
2024-12-14 |
|
pbpigeon
|
public |
PacBio transcript toolkit
|
2024-12-14 |
|
splitmem
|
public |
Graphical pan-genome analysis with suffix skips
|
2024-12-14 |
|
qgrs-cpp
|
public |
C++ implementation of QGRS mapping.
|
2024-12-14 |
|
readfq
|
public |
A high-speed tool to calculate reads number and total base count in FASTQ file, forked from Li Heng's original version
|
2024-12-14 |
|
r-ggbiplot
|
public |
A biplot based on ggplot2
|
2024-12-14 |
|
primer3-py
|
public |
Python bindings for Primer3
|
2024-12-14 |
|
r-anndata
|
public |
A 'reticulate' wrapper for the Python package 'anndata'. Provides a scalable way of keeping track of data and learned annotations. Used to read from and write to the h5ad file format.
|
2024-12-14 |
|
ucsc-maffetch
|
public |
get overlapping records from an MAF using an index table
|
2024-12-14 |
|
fairy
|
public |
fairy calculates all-to-all approximate coverage for multi-sample metagenomic binning > 100x faster than alignment.
|
2024-12-14 |
|
lrez
|
public |
Standalone tool and library allowing to work with barcoded linked-reads
|
2024-12-14 |
|
r-phewas
|
public |
Phenome Wide Association Studies (PheWAS) - Functions to perform Phenome Wide Association Studies (PheWAS). These functions include the conversion of ICD9 codes to PheWAS codes (v1.2), statistical analysis, and plotting.
|
2024-12-14 |
|
mrsfast
|
public |
mrsFAST - micro-read substitution-only Fast Alignment Search Tool.
|
2024-12-14 |
|
soapdenovo2-errorcorrection
|
public |
Error correction for soapdenovo2.
|
2024-12-14 |
|
terminus
|
public |
Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data
|
2024-12-14 |
|
gbmunge
|
public |
Munge GenBank files into FASTA and tab-separated metadata.
|
2024-12-14 |
|
gb_taxonomy_tools
|
public |
These are four simple utilities which perform certain manipulations and visualization tasks on GenBank taxonomic information.
|
2024-12-14 |
|
famsa
|
public |
Algorithm for large-scale multiple sequence alignments.
|
2024-12-14 |
|
rustyread
|
public |
Rustyread, a long-read simulator
|
2024-12-14 |
|
seqan_tcoffee
|
public |
SeqAn::T-Coffee - Multiple Sequence Alignment
|
2024-12-14 |
|
kronik
|
public |
No Summary
|
2024-12-14 |
|
libsbml
|
public |
LibSBML is a free, open-source programming library to help you read, write, manipulate, translate, and validate SBML files and data streams.
|
2024-12-14 |
|
ancestry_hmm-s
|
public |
Inferring adaptive introgression from genomic data using hidden Markov models
|
2024-12-14 |
|
rapmap
|
public |
Rapid sensitive and accurate read mapping via quasi-mapping
|
2024-12-14 |
|
nanoq
|
public |
Ultra-fast quality control and summary reports for nanopore reads
|
2024-12-14 |
|
ucsc-bedcoverage
|
public |
Analyse coverage by bed files - chromosome by
|
2024-12-14 |
|
fsm-lite
|
public |
Frequency-based String Mining (lite)
|
2024-12-14 |
|
gb-io
|
public |
A Python interface to gb-io, a fast GenBank parser and serializer written in Rust.
|
2024-12-14 |
|
matlock
|
public |
Simple tools for working with Hi-C data
|
2024-12-14 |
