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fwdpy11
|
public |
Forward-time population genetic simulation in Python.
|
2024-12-13 |
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digestiflow-cli
|
public |
Command line client for Digestiflow.
|
2024-12-13 |
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pgma-simple
|
public |
No Summary
|
2024-12-13 |
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ucsc-bedweedoverlapping
|
public |
Filter out beds that overlap a 'weed.bed' file.
|
2024-12-13 |
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meryl
|
public |
No Summary
|
2024-12-13 |
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ska
|
public |
SKA (Split Kmer Analysis)
|
2024-12-13 |
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ucsc-dbsnoop
|
public |
Produce an overview of a database.
|
2024-12-13 |
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fmlrc
|
public |
A long-read error correction tool using the multi-string Burrows Wheeler Transform
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2024-12-13 |
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estscan
|
public |
No Summary
|
2024-12-13 |
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ucsc-linestora
|
public |
generate .ra format from lines with pipe-separated fields
|
2024-12-13 |
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ucsc-stringify
|
public |
Convert file to C strings.
|
2024-12-13 |
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vdjer
|
public |
B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data
|
2024-12-13 |
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perl-socket6
|
public |
IPv6 related part of the C socket.h defines and structure manipulators
|
2024-12-13 |
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ucsc-bigpsltopsl
|
public |
convert bigPsl file to psl
|
2024-12-13 |
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w4mclassfilter
|
public |
Filter Workflow4Metabolomics feature list, optionally imputing NA values.
|
2024-12-13 |
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ucsc-wigcorrelate
|
public |
Produce a table that correlates all pairs of wigs.
|
2024-12-13 |
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perl-perl-unsafe-signals
|
public |
Allow unsafe handling of signals in selected blocks
|
2024-12-13 |
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ucsc-hgfindspec
|
public |
Create hgFindSpec table from trackDb.ra files.
|
2024-12-13 |
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fqtrim
|
public |
fqtrim is a versatile stand-alone utility that can be used to trim adapters, poly-A tails, terminal unknown bases (Ns) and low quality 3' regions in reads from high-throughput next-generation sequencing machines.
|
2024-12-13 |
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ucsc-ratolines
|
public |
Output .ra file stanzas as single lines, with pipe-separated fields.
|
2024-12-13 |
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fasta_ushuffle
|
public |
a wrapper for uShuffle
|
2024-12-13 |
|
art
|
public |
No Summary
|
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.
|
2024-12-13 |
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gvcfgenotyper
|
public |
A utility for merging and genotyping Illumina-style GVCFs.
|
2024-12-13 |
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perl-acme-damn
|
public |
'Unbless' Perl objects.
|
2024-12-13 |
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r-lme4qtl
|
public |
Linear mixed models (lme4) with flexible covariance structure for qtl and association analysis.
|
2024-12-13 |
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pizzly
|
public |
Fast fusion detection using kallisto
|
2024-12-13 |
|
starcode
|
public |
Starcode: sequence clustering based on all-pairs search
|
2024-12-13 |
|
nanoblaster
|
public |
Basic Local Alignment and Search Tool for Oxford Nanopore Long Sequences
|
2024-12-13 |
|
genometester4
|
public |
A toolkit for performing set operations - union, intersection and complement - on k-mer lists.
|
2024-12-13 |
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ucsc-hgspeciesrna
|
public |
Create fasta file with RNA from one species
|
2024-12-13 |
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dialign2
|
public |
DIALIGN multiple sequence alignment using various sources of external information
|
2024-12-13 |
|
perl-gdtextutil
|
public |
Text utilities for use with GD
|
2024-12-13 |
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ucsc-trfbig
|
public |
Mask tandem repeats on a big sequence file.
|
2024-12-13 |
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ucsc-bedgraphtobigwig
|
public |
Convert a bedGraph file to bigWig format.
|
2024-12-13 |
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fqzcomp
|
public |
Fqzcomp is a basic fastq compressor, designed primarily for high performance.
|
2024-12-13 |
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ucsc-maffrag
|
public |
Extract maf sequences for a region from database
|
2024-12-13 |
|
epa-ng
|
public |
Massively parallel phylogenetic placement of genetic sequences
|
2024-12-13 |
|
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)
|
2024-12-13 |
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ucsc-genepredtomafframes
|
public |
create mafFrames tables from a genePreds
|
2024-12-13 |
|
ucsc-maffilter
|
public |
Filter out maf files. Output goes to standard out
|
2024-12-13 |
|
r-annotables
|
public |
Provides tables for converting and annotating Ensembl Gene IDs.
|
2024-12-13 |
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ucsc-pslrecalcmatch
|
public |
Recalculate match,mismatch,repMatch columns in psl file.
|
2024-12-13 |
|
ucsc-axtchain
|
public |
Chain together axt alignments.
|
2024-12-13 |
|
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.
|
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 |
|
ucsc-mafgene
|
public |
output protein alignments using maf and genePred
|
2024-12-13 |
|
twopaco
|
public |
A fast constructor of the compressed de Bruijn graph from many genomes.
|
2024-12-13 |
