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pb-dazzler
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public |
The Dresden Assembler suite -- Pacific Biosciences forks
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2024-12-14 |
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perl-set-object
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public |
Unordered collections (sets) of Perl Objects
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2024-12-14 |
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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.
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2024-12-14 |
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ucsc-nibfrag
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public |
Extract part of a nib file as .fa (all bases/gaps lower case by default)
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2024-12-14 |
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ucsc-checktablecoords
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public |
check invariants on genomic coords in table(s).
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2024-12-14 |
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ucsc-pslpostarget
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public |
flip psl strands so target is positive and implicit
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2024-12-14 |
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r-phyext2
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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.
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2024-12-14 |
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bcalm
|
public |
BCALM 2 is a bioinformatics tool for constructing the compacted de Bruijn graph from sequencing data.
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2024-12-14 |
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paladin
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public |
Protein Alignment and Detection Interface
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2024-12-14 |
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scrappie
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public |
Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
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2024-12-14 |
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ucsc-pslpairs
|
public |
join paired ends in psl alignments
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2024-12-14 |
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metacortex
|
public |
MetaCortex is an assembler for metagenomic, or environmental sequence data.
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2024-12-14 |
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splitmem
|
public |
Graphical pan-genome analysis with suffix skips
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2024-12-14 |
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qgrs-cpp
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public |
C++ implementation of QGRS mapping.
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2024-12-14 |
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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 |
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r-ggbiplot
|
public |
A biplot based on ggplot2
|
2024-12-14 |
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primer3-py
|
public |
Python bindings for Primer3
|
2024-12-14 |
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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 |
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ucsc-maffetch
|
public |
get overlapping records from an MAF using an index table
|
2024-12-14 |
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fairy
|
public |
fairy calculates all-to-all approximate coverage for multi-sample metagenomic binning > 100x faster than alignment.
|
2024-12-14 |
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lrez
|
public |
Standalone tool and library allowing to work with barcoded linked-reads
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2024-12-14 |
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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 |
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mrsfast
|
public |
mrsFAST - micro-read substitution-only Fast Alignment Search Tool.
|
2024-12-14 |
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soapdenovo2-errorcorrection
|
public |
Error correction for soapdenovo2.
|
2024-12-14 |
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terminus
|
public |
Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data
|
2024-12-14 |
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gbmunge
|
public |
Munge GenBank files into FASTA and tab-separated metadata.
|
2024-12-14 |
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gb_taxonomy_tools
|
public |
These are four simple utilities which perform certain manipulations and visualization tasks on GenBank taxonomic information.
|
2024-12-14 |
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famsa
|
public |
Algorithm for large-scale multiple sequence alignments.
|
2024-12-14 |
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rustyread
|
public |
Rustyread, a long-read simulator
|
2024-12-14 |
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seqan_tcoffee
|
public |
SeqAn::T-Coffee - Multiple Sequence Alignment
|
2024-12-14 |
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kronik
|
public |
No Summary
|
2024-12-14 |
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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 |
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ancestry_hmm-s
|
public |
Inferring adaptive introgression from genomic data using hidden Markov models
|
2024-12-14 |
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rapmap
|
public |
Rapid sensitive and accurate read mapping via quasi-mapping
|
2024-12-14 |
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ucsc-bedcoverage
|
public |
Analyse coverage by bed files - chromosome by
|
2024-12-14 |
|
fsm-lite
|
public |
Frequency-based String Mining (lite)
|
2024-12-14 |
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gb-io
|
public |
A Python interface to gb-io, a fast GenBank parser and serializer written in Rust.
|
2024-12-14 |
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matlock
|
public |
Simple tools for working with Hi-C data
|
2024-12-14 |
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recgraph
|
public |
Optimal sequence-to-graph alignment with recombinations
|
2024-12-14 |
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ucsc-chainstitchid
|
public |
Join chain fragments with the same chain ID into a single
|
2024-12-14 |
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transgenescan
|
public |
Software tool for finding genes in assembled transcripts from metatranscriptomic sequences.
|
2024-12-14 |
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gatb
|
public |
The Genome Analysis Toolbox with de-Bruijn graph
|
2024-12-14 |
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unifrac-binaries
|
public |
Fast phylogenetic diversity calculations
|
2024-12-14 |
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r-spieceasi
|
public |
Estimate networks from the precision matrix of compositional microbial abundance data.
|
2024-12-14 |
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abawaca
|
public |
No Summary
|
2024-12-14 |
|
mea
|
public |
Mea was developed as part of the lab class "Bioinformatik von RNA- und Proteinstrukturen (Praktikum, Modul 10-202-2208)". The package predicts maximum expected accuracy (MEA) RNA secondary structures from dot plots of RNAs while correcting the score in dependence of base pair span. Furthermore, it provides tools to evaluate predictions and optimize parameters.
|
2024-12-14 |
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ghostz
|
public |
GHOSTZ is a highly efficient remote homologue detection tool
|
2024-12-14 |
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r-metadig
|
public |
A set of utility methods for authoring MetaDIG checks in R.
|
2024-12-14 |
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rukki
|
public |
Extracting paths from assembly graphs.
|
2024-12-14 |
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rfmix
|
public |
RFMix implements a fast discriminative approach to modeling ancestry along an admixed chromosome given observed haplotype sequences of known or inferred ancestry.
|
2024-12-14 |
