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r-rubic
|
public |
No Summary
|
2024-12-13 |
|
smhasher
|
public |
No Summary
|
2024-12-13 |
|
ucsc-chromgraphtobin
|
public |
Make binary version of chromGraph.
|
2024-12-13 |
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ucsc-chainprenet
|
public |
Remove chains that don't have a chance of being netted
|
2024-12-13 |
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zerone
|
public |
Zerone discretizes several ChIP-seq replicates simultaneously and resolves conflicts between them.
|
2024-12-13 |
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perl-math-cdf
|
public |
Generate probabilities and quantiles from several statistical probability functions
|
2024-12-13 |
|
takeabreak
|
public |
tool that can detect inversion breakpoints directly from raw NGS reads, without the need of any reference genome and without de novo assembling the genomes
|
2024-12-13 |
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ucsc-chainfilter
|
public |
Filter chain files. Output goes to standard out.
|
2024-12-13 |
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groot
|
public |
A tool for resistome profiling of metagenomic samples.
|
2024-12-13 |
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prodigal
|
public |
Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program
|
2024-12-13 |
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ucsc-wigtobigwig
|
public |
Convert ascii format wig file (in fixedStep, variableStep).
|
2024-12-13 |
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pytabix
|
public |
Fast random access to sorted files compressed with bgzip and indexed by tabix.
|
2024-12-13 |
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ucsc-bigwigsummary
|
public |
Extract summary information from a bigWig file.
|
2024-12-13 |
|
ucsc-psldropoverlap
|
public |
deletes all overlapping self alignments.
|
2024-12-13 |
|
clustalw
|
public |
No Summary
|
2024-12-13 |
|
ucsc-oligomatch
|
public |
find perfect matches in sequence.
|
2024-12-13 |
|
nonpareil
|
public |
Estimate average coverage and create curves for metagenomic datasets
|
2024-12-13 |
|
selscan
|
public |
a program to calculate EHH-based scans for positive selection in genomes
|
2024-12-13 |
|
ucsc-findmotif
|
public |
find specified motif in sequence
|
2024-12-13 |
|
ucsc-chaintoaxt
|
public |
Convert from chain to axt file
|
2024-12-13 |
|
swarm
|
public |
A robust and fast clustering method for amplicon-based studies.
|
2024-12-13 |
|
dsk
|
public |
DSK is a k-mer counter for reads or genomes.
|
2024-12-13 |
|
ucsc-psltochain
|
public |
Convert psl records to chain records
|
2024-12-13 |
|
cd-hit
|
public |
Clusters and compares protein or nucleotide sequences
|
2024-12-13 |
|
mvicuna
|
public |
M-Vicuna is a modularized version of VICUNA, a de novo assembly program targeting populations with high mutation rates
|
2024-12-13 |
|
sparc
|
public |
No Summary
|
2024-12-13 |
|
verse
|
public |
VERSE: a versatile and efficient RNA-Seq read counting tool
|
2024-12-13 |
|
lordfast
|
public |
Sensitive and Fast Alignment Search Tool for Long Read sequencing Data
|
2024-12-13 |
|
ucsc-tolower
|
public |
Convert upper case to lower case in file. Leave other chars alone
|
2024-12-13 |
|
anise_basil
|
public |
BASIL is a method to detect breakpoints for structural variants (including insertion breakpoints) from aligned paired HTS reads in BAM format. ANISE is a method for the assembly of large insertions from paired reads in BAM format and a list candidate insert breakpoints as generated by BASIL.
|
2024-12-13 |
|
mapdia
|
public |
Performs essential data preprocessing, including novel retention time-based normalization method and a sequence of peptide/fragment selection steps, and more importantly, hierarchical model-based statistical significance analysis for multi-group comparisons under representative experimental designs.
|
2024-12-13 |
|
red
|
public |
Red (RepeatsDetector): an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
|
2024-12-13 |
|
hapbin
|
public |
hapbin is a collection of tools for efficiently calculating Extended Haplotype Homozygosity (EHH), the Integrated Haplotype Score (iHS) and the Cross Population Extended Haplotype Homozogysity (XP-EHH) statistic.
|
2024-12-13 |
|
ucsc-addcols
|
public |
Sum columns in a text file.
|
2024-12-13 |
|
ucsc-avecols
|
public |
average together columns
|
2024-12-13 |
|
ucsc-chainsplit
|
public |
Split chains up by target or query sequence
|
2024-12-13 |
|
ucsc-fapolyasizes
|
public |
get poly A sizes
|
2024-12-13 |
|
rust-ncbitaxonomy
|
public |
A Rust crate for working with a local copy of the NCBI Taxonomy database, which provides utilities for taxonomic filtering.
|
2024-12-13 |
|
ucsc-hgbbidblink
|
public |
Add table that just contains a pointer to a bbiFile to database. This program
|
2024-12-13 |
|
ucsc-mktime
|
public |
convert date string to unix timestamp
|
2024-12-13 |
|
trimal
|
public |
A tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment
|
2024-12-13 |
|
racon
|
public |
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads.
|
2024-12-13 |
|
r-xmlrpc
|
public |
A simple implementation of XML-RPC for R.
|
2024-12-13 |
|
ucsc-pslswap
|
public |
Swap target and query in psls
|
2024-12-13 |
|
ucsc-ratotab
|
public |
Convert ra file to table.
|
2024-12-13 |
|
ucsc-fetchchromsizes
|
public |
used to fetch chrom.sizes information from UCSC for the given <db>
|
2024-12-13 |
|
ucsc-nibsize
|
public |
print size of nibs
|
2024-12-13 |
|
htstream
|
public |
HTStream is a quality control and processing pipeline for High Throughput Sequencing data.
The difference between HTStream and other tools is that HTStream uses a tab delimited fastq format that allows for streaming from application to application.
This streaming creates some awesome efficiencies when processing HTS data and makes it fully interoperable with other standard Linux tools.
|
2024-12-13 |
|
libbigwig
|
public |
A C library for handling bigWig files
|
2024-12-13 |
|
hmmer
|
public |
Biosequence analysis using profile hidden Markov models
|
2024-12-13 |
