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fasta_ushuffle
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public |
a wrapper for uShuffle
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2024-12-13 |
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art
|
public |
No Summary
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2024-12-13 |
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kalign2
|
public |
Kalign is a fast and accurate multiple sequence alignment algorithm designed to align large numbers of protein sequences.
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2024-12-13 |
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ampliconsuite
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public |
An end-to-end wrapper for focal amplification analysis from whole-genome sequencing using AmpliconArchitect and associated tools.
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2024-12-13 |
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r-erah
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public |
Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics.
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2024-12-13 |
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gvcfgenotyper
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public |
A utility for merging and genotyping Illumina-style GVCFs.
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2024-12-13 |
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perl-acme-damn
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public |
'Unbless' Perl objects.
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2024-12-13 |
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r-lme4qtl
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public |
Linear mixed models (lme4) with flexible covariance structure for qtl and association analysis.
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2024-12-13 |
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pizzly
|
public |
Fast fusion detection using kallisto
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2024-12-13 |
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oligomap
|
public |
Oligomap is a program for fast identification of nearly-perfect matches of small RNAs in sequence databases.
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2024-12-13 |
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starcode
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public |
Starcode: sequence clustering based on all-pairs search
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2024-12-13 |
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nanoblaster
|
public |
Basic Local Alignment and Search Tool for Oxford Nanopore Long Sequences
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2024-12-13 |
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genometester4
|
public |
A toolkit for performing set operations - union, intersection and complement - on k-mer lists.
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2024-12-13 |
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ucsc-hgspeciesrna
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public |
Create fasta file with RNA from one species
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2024-12-13 |
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dialign2
|
public |
DIALIGN multiple sequence alignment using various sources of external information
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2024-12-13 |
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ucsc-trfbig
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public |
Mask tandem repeats on a big sequence file.
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2024-12-13 |
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ucsc-bedgraphtobigwig
|
public |
Convert a bedGraph file to bigWig format.
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2024-12-13 |
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fqzcomp
|
public |
Fqzcomp is a basic fastq compressor, designed primarily for high performance.
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2024-12-13 |
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ucsc-maffrag
|
public |
Extract maf sequences for a region from database
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2024-12-13 |
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meta-apo
|
public |
Meta-Apo improves accuracy of 16S-amplicon-based prediction of microbiome function
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2024-12-13 |
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tidehunter
|
public |
TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
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2024-12-13 |
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epa-ng
|
public |
Massively parallel phylogenetic placement of genetic sequences
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2024-12-13 |
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btrim
|
public |
This tool is made to remove "tips" (short dead ends) from a compacted de Bruijn graph and more generally to remove sequencing errors. Used in Bcool a short read corrector (https://arxiv.org/abs/1711.03336)
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2024-12-13 |
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prosampler
|
public |
An ultra-fast motif finding program in large ChIP-seq datasets.
|
2024-12-13 |
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ucsc-genepredtomafframes
|
public |
create mafFrames tables from a genePreds
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2024-12-13 |
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ncls
|
public |
Fast overlap datastructure.
|
2024-12-13 |
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ucsc-maffilter
|
public |
Filter out maf files. Output goes to standard out
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2024-12-13 |
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r-annotables
|
public |
Provides tables for converting and annotating Ensembl Gene IDs.
|
2024-12-13 |
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centrifuge-core
|
public |
Classifier for metagenomic sequences. Does not include evaluation scripts
|
2024-12-13 |
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ucsc-pslrecalcmatch
|
public |
Recalculate match,mismatch,repMatch columns in psl file.
|
2024-12-13 |
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ucsc-axtchain
|
public |
Chain together axt alignments.
|
2024-12-13 |
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tttrlib
|
public |
A file format agnostic library for time-resolved imaging and spectroscopic data.
|
2024-12-13 |
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ucsc-parasol
|
public |
Parasol is the name given to the overall system for managing jobs on a computer cluster and to this specific command. This command is intended primarily for system administrators. The 'para' command is the primary command for users.
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2024-12-13 |
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ucsc-twobitmask
|
public |
apply masking to a .2bit file, creating a new .2bit file
|
2024-12-13 |
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ucsc-facount
|
public |
count base statistics and CpGs in FA files.
|
2024-12-13 |
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bcov
|
public |
BCov is a software package designed for predicting protein beta-sheet topology from amino acid sequence.
|
2024-12-13 |
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ucsc-mafgene
|
public |
output protein alignments using maf and genePred
|
2024-12-13 |
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ntcard
|
public |
Estimating k-mer coverage histogram of genomics data
|
2024-12-13 |
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cgmlst-dists
|
public |
Convert cgMLST table to distance matrix
|
2024-12-13 |
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desalt
|
public |
De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
|
2024-12-13 |
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ucsc-chaintopsl
|
public |
Convert chain file to psl format
|
2024-12-13 |
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perl-unicode-utf8
|
public |
Encoding and decoding of UTF-8 encoding form
|
2024-12-13 |
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lambda
|
public |
Lambda is a local aligner optimized for many query sequences and searches in protein space
|
2024-12-13 |
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ucsc-bedcommonregions
|
public |
Create a bed file (just bed3) that contains the regions common to all inputs.
|
2024-12-13 |
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nxtrim
|
public |
Software to remove Nextera Mate Pair adapters and categorise reads according to the orientation implied by the adapter location.
|
2024-12-13 |
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dnp-mapping
|
public |
Mapping of a nuclesome position in sequence by pattern
|
2024-12-13 |
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fasta_windows
|
public |
Generate fast sequence statistics in windows for each record in a fasta file.
|
2024-12-13 |
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minigraph
|
public |
Proof-of-concept seq-to-graph mapper and graph generator
|
2024-12-13 |
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ucsc-genepredcheck
|
public |
validate genePred files or tables
|
2024-12-13 |
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ucsc-paranode
|
public |
version 12.18
|
2024-12-13 |
