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ucsc-beditemoverlapcount
|
public |
count number of times a base is overlapped by the
|
2024-12-10 |
|
ucsc-pslsort
|
public |
Merge and sort psCluster .psl output files
|
2024-12-10 |
|
sumaclust
|
public |
Sumaclust clusters sequences in a way that is fast and exact at the same time, using the same clustering algorithm as UCLUST and CD-HIT. For more information see url.
|
2024-12-10 |
|
ldhelmet
|
public |
Software program for statistical inference of fine-scale crossover recombination rates from population genetic data.
|
2024-12-10 |
|
r-pctgcdata
|
public |
Provides GC percentage of a 1 kilobase window at a genomic position for different builds of human and mouse genomes.
|
2024-12-10 |
|
libgenome
|
public |
A C++ development library designed to make common operations on DNA and protein sequences easy. libGenome provides functionality to read, write, and manipulate sequence and annotation data in several file formats.
|
2024-12-10 |
|
align_it
|
public |
Align-it is a tool to align molecules according to their pharmacophores. A pharmacophore is an abstract concept based on the specific interactions observed in drug-receptor interactions: hydrogen bonding, charge transfer, electrostatic and hydrophobic interactions.
|
2024-12-10 |
|
ecoprimers
|
public |
No Summary
|
2024-12-10 |
|
slimm
|
public |
SLIMM - Species Level Identification of Microbes from Metagenomes
|
2024-12-10 |
|
moods
|
public |
MOODS: Motif Occurrence Detection Suite
|
2024-12-10 |
|
merlin
|
public |
MERLIN uses sparse trees to represent gene flow in pedigrees and is a fast pedigree analysis package
|
2024-12-10 |
|
apt-probeset-summarize
|
public |
From Affymetrix Power Tools package. apt-probeset-summarize is program for analyzing expression arrays including 3' IVT and exon arrays. Supports background correction (MAS5,RMA), normalization (linear scaling, quantile, sketch), and summarization (PLIER, RMA, MAS5) methods.
|
2024-12-10 |
|
ucsc-bedextendranges
|
public |
extend length of entries in bed 6+ data to be at least the given length,
|
2024-12-10 |
|
ucsc-bedtogenepred
|
public |
convert bed format files to genePred format
|
2024-12-10 |
|
ucsc-netsyntenic
|
public |
Add synteny info to net.
|
2024-12-10 |
|
perl-math-random
|
public |
Random Number Generators
|
2024-12-10 |
|
cmappy
|
public |
Assorted tools for interacting with .gct, .gctx, .grp, and .gmt files as well as other Connectivity Map (Broad Institute) data/tools
|
2024-12-10 |
|
biobb_io
|
public |
Biobb_io is the Biobb module collection to fetch data to be consumed by the rest of the Biobb building blocks.
|
2024-12-10 |
|
glimmerhmm
|
public |
No Summary
|
2024-12-10 |
|
poa
|
public |
POA is Partial Order Alignment, a fast program for multiple sequence alignment in bioinformatics. Its advantages are speed, scalability, sensitivity, and the superior ability to handle branching / indels in the alignment.
|
2024-12-10 |
|
blast-legacy
|
public |
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences.
|
2024-12-10 |
|
bwapy
|
public |
Bwapy provides python wrappers for bwa.
|
2024-12-10 |
|
pyprophet
|
public |
Python reimplementation of mProphet peak scoring
|
2024-12-10 |
|
consan
|
public |
Pairwise RNA structural alignment, both unconstrained and constrained on alignment pins.
|
2024-12-10 |
|
prank
|
public |
PRANK is a probabilistic multiple alignment program for DNA, codon and amino-acid sequences.
|
2024-12-10 |
|
parasail-python
|
public |
Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms.
|
2024-12-10 |
|
svdb
|
public |
structural variant database software
|
2024-12-10 |
|
pytriangle
|
public |
A python interface to the 2D triangulation program TRIANGLE
|
2024-12-10 |
|
mdust
|
public |
No Summary
|
2024-12-09 |
|
starfish
|
public |
Standardized analysis pipeline for image-based transcriptomics.
|
2024-12-09 |
|
nanocomp
|
public |
Comparing runs of Oxford Nanopore sequencing data and alignments
|
2024-12-09 |
|
cgat-apps
|
public |
Computational Genomics Analysis Toolkit.
|
2024-12-06 |
|
phylip
|
public |
Package of programs for inferring phylogenies
|
2024-12-06 |
|
tmalign
|
public |
TM-align sequence-order independent protein structure alignment
|
2024-12-06 |
|
rmblast
|
public |
RMBlast is a RepeatMasker compatible version of the standard NCBI BLAST+ suite.
|
2024-12-05 |
|
sistr_cmd
|
public |
Salmonella In Silico Typing Resource (SISTR) commandline tool for serovar prediction
|
2024-12-05 |
|
pplacer
|
public |
Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment.
|
2024-12-05 |
|
busco
|
public |
Assessment of assembly completeness using Universal Single Copy Orthologs.
|
2024-12-05 |
|
manta
|
public |
Structural variant and indel caller for mapped sequencing data
|
2024-12-05 |
|
perl-bio-samtools
|
public |
Read SAM/BAM files
|
2024-12-05 |
|
mosdepth
|
public |
Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.
|
2024-12-05 |
|
star-fusion
|
public |
STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included.
|
2024-12-05 |
|
mustang
|
public |
Mustang is a program that implements an algorithm for structural alignment of multiple protein structures.
|
2024-12-04 |
|
mashmap
|
public |
A fast approximate aligner for long DNA sequences.
|
2024-12-04 |
|
alignlib-lite
|
public |
Simple wrapper around alignlib C++ library for sequence alignment
|
2024-12-04 |
|
pybigwig
|
public |
A python extension written in C for quick access to bigWig files.
|
2024-12-03 |
|
fastp
|
public |
A ultra-fast FASTQ preprocessor with full features (QC/adapters/trimming/filtering/splitting...)
|
2024-12-02 |
|
gubbins
|
public |
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.
|
2024-12-02 |
|
graphaligner
|
public |
Sequence to graph aligner for long reads
|
2024-12-02 |
|
baitfisher
|
public |
No Summary
|
2024-12-02 |
