|
comparems2
|
public |
A simple tool developed to compare, globally, all MS/MS spectra between two datasets (in Mascot Generic Format or MGF).
|
2024-12-13 |
|
migrate-n
|
public |
Population Genetics - Panmixia and Migration detection
|
2024-12-13 |
|
strike
|
public |
A program to evaluate protein multiple sequence alignments using a single protein structure.
|
2024-12-13 |
|
fastspar
|
public |
Rapid and scalable correlation estimation for compositional data
|
2024-12-13 |
|
ucsc-texthistogram
|
public |
Make a histogram in ascii
|
2024-12-13 |
|
simbac
|
public |
SimBac simulates bacterial genomes with the clonal genealogy under a coalescent model with recombination.
|
2024-12-13 |
|
dehomopolymerate
|
public |
Collapse homopolymer runs in FASTQ files
|
2024-12-13 |
|
hcluster_sg
|
public |
A tool for hierarchically clustering on a sparse graph
|
2024-12-13 |
|
ucsc-bigwigtowig
|
public |
Convert bigWig to wig. This will keep more of the same structure of the
|
2024-12-13 |
|
subread
|
public |
High-performance read alignment, quantification, and mutation discovery.
|
2024-12-13 |
|
ucsc-bigwigcluster
|
public |
Cluster bigWigs using a hacTree
|
2024-12-13 |
|
ucsc-bigwigaverageoverbed
|
public |
Compute average score of big wig over each bed, which may have introns.
|
2024-12-13 |
|
age-metasv
|
public |
optimal alignment of sequences with structural variants (SVs), modifiied for MetaSV integration
|
2024-12-13 |
|
raxml
|
public |
Phylogenetics - Randomized Axelerated Maximum Likelihood.
|
2024-12-13 |
|
ucsc-paranodestatus
|
public |
version 12.18
|
2024-12-13 |
|
weeder
|
public |
No Summary
|
2024-12-13 |
|
pullseq
|
public |
No Summary
|
2024-12-13 |
|
easel
|
public |
Easel is an ANSI C code library for computational analysis of biological sequences using probabilistic models.
|
2024-12-13 |
|
ucsc-pslpartition
|
public |
split PSL files into non-overlapping sets
|
2024-12-13 |
|
snap-aligner
|
public |
Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data
|
2024-12-13 |
|
slow5curl
|
public |
Tool for accessing remote BLOW5 files.
|
2024-12-13 |
|
pegasusio
|
public |
PegasusIO is the IO package for Pegasus.
|
2024-12-13 |
|
perl-dbd-pg
|
public |
DBI PostgreSQL interface
|
2024-12-13 |
|
bmfilter
|
public |
bmfilter is part of BMTagger aka Best Match Tagger, for removing human reads from metagenomics datasets
|
2024-12-13 |
|
ucsc-lavtoaxt
|
public |
Convert blastz lav file to an axt file (which includes sequence)
|
2024-12-13 |
|
dart
|
public |
Dart: a fast and accurate RNA-seq mapper
|
2024-12-13 |
|
pairsnp
|
public |
pairsnp calculates pairwise SNP distance matrices from multiple sequence alignment fasta files.
|
2024-12-13 |
|
msisensor2
|
public |
MSIsensor2 is a novel algorithm based machine learning, featuring a large upgrade in the microsatellite instability (MSI) detection for tumor only sequencing data, including Cell-Free DNA (cfDNA), Formalin-Fixed Paraffin-Embedded(FFPE) and other sample types.
|
2024-12-13 |
|
bedtools
|
public |
A powerful toolset for genome arithmetic
|
2024-12-13 |
|
gctb
|
public |
GCTB (Genome-wide Complex Trait Bayesian ) is a software tool that comprises a family of Bayesian linear mixed models for complex trait analyses using genome-wide SNPs.
|
2024-12-13 |
|
aster
|
public |
Accurate Species Tree EstimatoR series; a family of optimation algorithms
for species tree inference implemented in C++
|
2024-12-13 |
|
ucsc-ixixx
|
public |
Create indices for simple line-oriented file of format
|
2024-12-13 |
|
splitp
|
public |
splitp is a streaming read pre-preprocessor.
|
2024-12-13 |
|
perl-io-compress
|
public |
IO Interface to compressed data files/buffers
|
2024-12-13 |
|
ucsc-newpythonprog
|
public |
Make a skeleton for a new python program
|
2024-12-13 |
|
flexbar
|
public |
Flexible barcode and adapter removal
|
2024-12-13 |
|
ucsc-maftopsl
|
public |
Convert maf to psl format
|
2024-12-13 |
|
quicksect
|
public |
A cythonized, extended version of the interval search tree in bx
|
2024-12-13 |
|
ucsc-bedrestricttopositions
|
public |
Filter bed file, restricting to only ones that match chrom/start/ends specified in restrict.bed file.
|
2024-12-13 |
|
centrifuge
|
public |
Classifier for metagenomic sequences. Supports classifier scripts
|
2024-12-13 |
|
minimap2-coverage
|
public |
A versatile pairwise aligner for genomic and spliced nucleotide sequences modified for use by LongQC
|
2024-12-13 |
|
pbgzip
|
public |
Parallel Block GZIP
|
2024-12-13 |
|
r-scimpute
|
public |
scImpute is accurate and robust imputation of single-cell RNA sequencing data.
|
2024-12-13 |
|
ucsc-qatoqac
|
public |
convert from uncompressed to compressed
|
2024-12-13 |
|
r-lisi
|
public |
This method was designed to assess how well mixed cells with different labels are in single cell RNAseq. This method uses the Inverse Simpson's Index to compute diversity of each cell's local neighborhood.
|
2024-12-13 |
|
ucsc-genepredfilter
|
public |
filter a genePred file
|
2024-12-13 |
|
me-pcr
|
public |
Multithreaded Electronic PCR (in-silico PCR) based on NCBI e-PCR.
|
2024-12-13 |
|
mbgc
|
public |
A tool for compressing collection of genomes in FASTA format
|
2024-12-13 |
|
bedtk
|
public |
Bedtk is a set of simple tools to process BED files.
|
2024-12-13 |
|
dnp-diprofile
|
public |
Dinucleotide frequency of occurrence in a batch of fasta sequences
|
2024-12-13 |
