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nanoplexer
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public |
Tool for demultiplexing Nanopore barcode sequence data
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2024-12-13 |
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ucsc-ameme
|
public |
find common patterns in DNA
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2024-12-13 |
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lightassembler
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public |
Lightweight assembly algorithm designed to be executed on a desktop machine. It uses a pair of cache oblivious Bloom filters, one holding a uniform sample of g-spaced sequenced k-mers and the other holding k-mers classified as likely correct, using a simple statistical test.
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2024-12-13 |
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ucsc-chainmergesort
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public |
Combine sorted files into larger sorted file
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2024-12-13 |
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admixtools
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public |
ADMIXTOOLS (Patterson et al. 2012) is a software package that supports formal tests of whether admixture occurred, and makes it possible to infer admixture proportions and dates.
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2024-12-13 |
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ucsc-bigbedinfo
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public |
Show information about a bigBed file.
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2024-12-13 |
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iow
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public |
Implementation of Balanced Parentheses
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2024-12-13 |
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ibdmix
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public |
ibdmix: estimate introgression by IBD
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2024-12-13 |
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sankoff
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public |
Fast implementation of sankoff algorithm on phylogeny
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2024-12-13 |
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gocr
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public |
GOCR is an OCR (Optical Character Recognition) program
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2024-12-13 |
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dnp-corrprofile
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public |
Profile of correlations between the patterns of dinucleotide frequency on forward and reverse strands
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2024-12-13 |
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kalign3
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public |
Kalign is a fast and accurate multiple sequence alignment algorithm.
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2024-12-13 |
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squizz
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public |
Squizz is a sequence/alignment format checker, but it has some conversion capabilities too.
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2024-12-13 |
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hilive2
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public |
Tool for real-time read alignment of Illumina sequencing data
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2024-12-13 |
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harvesttools
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public |
HarvestTools is a part of the Harvest software suite and provides file conversion between Gingr files and various standard text formats
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2024-12-13 |
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lca
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public |
LCA - Lowest Common Ancestor calculation tool
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2024-12-13 |
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cagee
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public |
Analyzes changes in gene expression in a way that accounts for phylogenetic history and provides a statistical foundation for evolutionary inferences
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2024-12-13 |
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lz4-bin
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public |
Extremely Fast Compression Application
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2024-12-13 |
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polypolish
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public |
Polishing genome assemblies with short reads.
|
2024-12-13 |
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spades
|
public |
SPAdes (St. Petersburg genome assembler) is intended for both standard isolates and single-cell MDA bacteria assemblies.
|
2024-12-13 |
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virulign
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public |
VIRULIGN is a tool for codon-correct pairwise alignments, with an augmented functionality to annotate the alignment according the positions of the proteins.
|
2024-12-13 |
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nedbit-features-calculator
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public |
Network diffusion and biology-informed topological features
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2024-12-13 |
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macs2
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public |
Model Based Analysis for ChIP-Seq data
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2024-12-13 |
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prinseq-plus-plus
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public |
PRINSEQ++ - Multi-threaded C++ sequence cleaning
|
2024-12-13 |
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ucsc-bigbedsummary
|
public |
Extract summary information from a bigBed file.
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2024-12-13 |
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ucsc-pslscore
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public |
calculate web blat score from psl files
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2024-12-13 |
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ncbi-ngs-sdk
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public |
NGS is a new, domain-specific API for accessing reads, alignments and pileups produced from Next Generation Sequencing.
|
2024-12-13 |
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abundancebin
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public |
No Summary
|
2024-12-13 |
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xtandem
|
public |
No Summary
|
2024-12-13 |
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yahs
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public |
YaHS, yet another Hi-C scaffolding tool.
|
2024-12-13 |
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fasta3
|
public |
The FASTA package - protein and DNA sequence similarity searching and alignment programs
|
2024-12-13 |
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slamem
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public |
slamem bioconda package from https://github.com/fjdf/slaMEM
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2024-12-13 |
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minimap
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public |
Experimental tool to find approximate mapping positions between long sequences
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2024-12-13 |
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genomethreader
|
public |
GenomeThreader is a software tool to compute gene structure predictions. The gene structure predictions are calculated using a similarity-based approach where additional cDNA/EST and/or protein sequences are used to predict gene structures via spliced alignments.
|
2024-12-13 |
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libdivsufsort
|
public |
No Summary
|
2024-12-13 |
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2pg_cartesian
|
public |
2pg cartesian is a framework of optimization algorithms for protein structure prediction.
|
2024-12-13 |
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naf
|
public |
Compressed binary file format for DNA/RNA/protein sequence data
|
2024-12-13 |
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r-mmcpcounter
|
public |
Murine version of MCP-counter, a tool to estimate the immune and stromal composition of heterogeneous tissue, from transcriptomic data
|
2024-12-13 |
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r-r0
|
public |
Estimation of R0 and Real-Time Reproduction Number from Epidemics.
|
2024-12-13 |
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revoluzer
|
public |
Genome rearrangement analysis tools
|
2024-12-13 |
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pretextsnapshot
|
public |
Commandline image generator for Pretext Hi-C genome contact maps.
|
2024-12-13 |
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ucsc-paranodestart
|
public |
version 12.18
|
2024-12-13 |
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karect
|
public |
Read error correction tool based on multiple alignment.
|
2024-12-13 |
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allegro
|
public |
A fast linkage and haplotype analysis utility making use of MTBDD to reduce complexity.
|
2024-12-13 |
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unimap
|
public |
Unimap is a fork of minimap2 optimized for assembly-to-reference alignment.
|
2024-12-13 |
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gwama
|
public |
Genome-Wide Association Meta Analysis
|
2024-12-13 |
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fwdpy11
|
public |
Forward-time population genetic simulation in Python.
|
2024-12-13 |
|
psass
|
public |
Comparison of pooled-sequencing data for two populations
|
2024-12-13 |
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pandora
|
public |
Pan-genome inference and genotyping with long noisy or short accurate reads
|
2024-12-13 |
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veryfasttree
|
public |
VeryFastTree -- speeding up the estimation of phylogenies for large alignments through parallelization and vectorization strategies.
|
2024-12-13 |
