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msisensor2
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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.
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2024-12-13 |
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bedtools
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public |
A powerful toolset for genome arithmetic
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2024-12-13 |
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gctb
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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.
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2024-12-13 |
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aster
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public |
Accurate Species Tree EstimatoR series; a family of optimation algorithms
for species tree inference implemented in C++
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2024-12-13 |
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ucsc-ixixx
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public |
Create indices for simple line-oriented file of format
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2024-12-13 |
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splitp
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public |
splitp is a streaming read pre-preprocessor.
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2024-12-13 |
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perl-io-compress
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public |
IO Interface to compressed data files/buffers
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2024-12-13 |
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ucsc-newpythonprog
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public |
Make a skeleton for a new python program
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2024-12-13 |
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flexbar
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public |
Flexible barcode and adapter removal
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2024-12-13 |
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ucsc-maftopsl
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public |
Convert maf to psl format
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2024-12-13 |
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quicksect
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public |
A cythonized, extended version of the interval search tree in bx
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2024-12-13 |
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ucsc-bedrestricttopositions
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public |
Filter bed file, restricting to only ones that match chrom/start/ends specified in restrict.bed file.
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2024-12-13 |
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centrifuge
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public |
Classifier for metagenomic sequences. Supports classifier scripts
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2024-12-13 |
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minimap2-coverage
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public |
A versatile pairwise aligner for genomic and spliced nucleotide sequences modified for use by LongQC
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2024-12-13 |
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pbgzip
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public |
Parallel Block GZIP
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2024-12-13 |
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r-scimpute
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public |
scImpute is accurate and robust imputation of single-cell RNA sequencing data.
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2024-12-13 |
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ucsc-qatoqac
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public |
convert from uncompressed to compressed
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2024-12-13 |
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r-lisi
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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.
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2024-12-13 |
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ucsc-genepredfilter
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public |
filter a genePred file
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2024-12-13 |
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me-pcr
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public |
Multithreaded Electronic PCR (in-silico PCR) based on NCBI e-PCR.
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2024-12-13 |
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mbgc
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public |
A tool for compressing collection of genomes in FASTA format
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2024-12-13 |
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bedtk
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public |
Bedtk is a set of simple tools to process BED files.
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2024-12-13 |
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dnp-diprofile
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public |
Dinucleotide frequency of occurrence in a batch of fasta sequences
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2024-12-13 |
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bfc
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public |
BFC is a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data.
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2024-12-13 |
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ucsc-hggcpercent
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public |
Calculate GC Percentage in 20kb windows
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2024-12-13 |
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ucsc-parafetch
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public |
try to fetch url with multiple connections
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2024-12-13 |
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ucsc-gmtime
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public |
convert unix timestamp to date string
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2024-12-13 |
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ucsc-subcolumn
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public |
Substitute one column in a tab-separated file.
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2024-12-13 |
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flexiplex
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public |
flexiplex: the flexible demultiplexer
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2024-12-13 |
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ucsc-farandomize
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public |
Program to create random fasta records
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2024-12-13 |
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ucsc-pslpretty
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public |
Convert PSL to human-readable output
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2024-12-13 |
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perl-crypt-openssl-random
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public |
No Summary
|
2024-12-13 |
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razers3
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public |
RazerS 3 - Faster, fully sensitive read mapping
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2024-12-13 |
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bamtools
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public |
C++ API & command-line toolkit for working with BAM data
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2024-12-13 |
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ucsc-bedtopsl
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public |
convert bed format files to psl format
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2024-12-13 |
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ucsc-subchar
|
public |
Substitute one character for another throughout a file.
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2024-12-13 |
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mcl
|
public |
MCL - a cluster algorithm for graphs
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2024-12-13 |
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ffindex
|
public |
FFindex - A database wrapped around mmap.
|
2024-12-13 |
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eigensoft
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public |
The EIGENSOFT package implements methods for analzing population structure and performing stratification correction
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2024-12-13 |
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simlord
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public |
SimLoRD is a read simulator for long reads from third generation sequencing. Currently, it supports the Pacific Biosciences SMRT error model.
|
2024-12-12 |
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ccphylo
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public |
CCPhylo enables phylogenetic analysis of samples based on overlaps between nucleotide created by e.g. KMA. Input file(s) may be given as non-option arguments succeding all options.
|
2024-12-12 |
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bayescan
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public |
Phylogenetics - Randomized Axelerated Maximum Likelihood.
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2024-12-12 |
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cd-hit-auxtools
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public |
Clusters and compares protein or nucleotide sequences
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2024-12-12 |
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fastq-tools
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public |
A collection of fastq manipulation scripts written in C for speed.
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2024-12-12 |
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eternafold
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public |
RNA structure prediction algorithm improved through crowdsourced training data
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2024-12-12 |
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perl-perlio-gzip
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public |
PerlIO interface to gzip/gunzip
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2024-12-12 |
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multiz
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public |
DNA multiple sequence aligner from Penn State's Miller lab.
|
2024-12-12 |
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canopy
|
public |
Canopy - Metagenomics Canopy Clustering Implementation
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2024-12-12 |
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genepop
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public |
Population Genetic Data Analysis package.
|
2024-12-12 |
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flexserv
|
public |
FlexServ protein structure conformational ensemble generation tools
|
2024-12-12 |
