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srnamapper
|
public |
Mapping small RNA data to a genome.
|
2024-12-13 |
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distle
|
public |
Fast distance matrix calculations on fasta and cgmlst files
|
2024-12-13 |
|
ucsc-fanoise
|
public |
Add noise to .fa file
|
2024-12-13 |
|
hi-corrector
|
public |
Remove biases from chromatin contact matrices generated by genome-wide proximity ligation assays, e.g. Hi-C and its variant TCC
|
2024-12-13 |
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jarvis
|
public |
Efficient lossless compression of genomic sequences
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2024-12-13 |
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chromap
|
public |
Fast alignment and preprocessing of chromatin profiles
|
2024-12-13 |
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ucsc-htmlcheck
|
public |
Do a little reading and verification of html file
|
2024-12-13 |
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simba_pbg
|
public |
A customized PyTorch-BigGraph (PBG) package for `simba`
|
2024-12-13 |
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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 |
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fastspar
|
public |
Rapid and scalable correlation estimation for compositional data
|
2024-12-13 |
|
ucsc-texthistogram
|
public |
Make a histogram in ascii
|
2024-12-13 |
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simbac
|
public |
SimBac simulates bacterial genomes with the clonal genealogy under a coalescent model with recombination.
|
2024-12-13 |
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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 |
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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 |
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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 |
|
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 |
