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malder
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public |
MALDER is a version of ALDER (http://groups.csail.mit.edu/cb/alder/) that has been modified to allow multiple admixture events.
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2024-12-12 |
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ucsc-bigwigcat
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public |
merge non-overlapping bigWig files
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2024-12-12 |
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ucsc-pslselect
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public |
select records from a PSL file.
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2024-12-12 |
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ucsc-bigwigmerge
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public |
Merge together multiple bigWigs into a single output bedGraph.
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2024-12-12 |
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ucsc-pslmrnacover
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public |
Make histogram of coverage percentage of mRNA in psl.
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2024-12-12 |
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poplddecay
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public |
PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format (VCF) files.
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2024-12-12 |
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fusioncatcher-seqtk
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public |
This is modified Seqtk version required for FusionCatcher.
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2024-12-12 |
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gsalign
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public |
GSAlign: an ultra-fast sequence alignment tool
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2024-12-12 |
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f5c
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public |
An optimised re-implementation of the call-methylation and eventalign modules in Nanopolish.
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2024-12-12 |
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hr2
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public |
HR2 is a program to calculate elemental compositions for a given mass. This program and its documentation are Copyright (c) 1992-2005 by Joerg Hau
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2024-12-12 |
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segul
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public |
An ultrafast and memory efficient tool for phylogenomics
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2024-12-12 |
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ucsc-mafspeciessubset
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public |
Extract a maf that just has a subset of species.
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2024-12-12 |
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fastq-and-furious
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public |
Fast handling of FASTQ files
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2024-12-12 |
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ucsc-hgloadnet
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public |
Load a generic net file into database
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2024-12-12 |
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amplisim
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public |
Plain simple amplicon sequence simulator for in-silico genomic sequencing assays.
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2024-12-12 |
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bed2gtf
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public |
A high-performance BED-to-GTF converter written in Rust
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2024-12-12 |
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tantan
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public |
tantan masks simple regions (low complexity & short-period tandem repeats) in biological sequences.
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2024-12-12 |
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fgwas
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public |
fgwas is a command line tool for integrating functional genomic information into a genome-wide association study (GWAS).
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2024-12-12 |
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ucsc-hgloadout
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public |
load RepeatMasker .out files into database
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2024-12-12 |
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r-biodb
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public |
An R package for connecting to chemical and biological databases.
|
2024-12-12 |
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consensify
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public |
A method for generating a consensus pseudohaploid genome sequence
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2024-12-12 |
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fastk
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public |
FastK is a k‑mer counter that is optimized for processing high quality DNA assembly data sets such as those produced with an Illumina instrument or a PacBio run in HiFi mode.
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2024-12-12 |
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gffcompare
|
public |
GffCompare by Geo Pertea
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2024-12-12 |
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raxml-ng
|
public |
RAxML Next Generation: faster, easier-to-use and more flexible
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2024-12-12 |
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boutroslabplottinggeneral
|
public |
No Summary
|
2024-12-12 |
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ucsc-fastqtofa
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public |
Convert from fastq to fasta format.
|
2024-12-12 |
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ucsc-hgloadmaf
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public |
Load a maf file index into the database
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2024-12-12 |
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prot-scriber
|
public |
Assigns short human readable descriptions (HRD) to query biological sequences using reference candidate descriptions.
|
2024-12-12 |
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conifer
|
public |
Calculate confidence scores from Kraken2 output
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2024-12-12 |
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bustools
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public |
bustools is a program for manipulating BUS files for single cell RNA-Seq datasets.
|
2024-12-12 |
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miniprot-boundary-scorer
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public |
Miniprot boundary scorer parses introns, starts, stops and exons from miniprot's alignment output and scores them
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2024-12-12 |
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tidk
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public |
Identify and find telomeres, or telomeric repeats in a genome.
|
2024-12-12 |
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ucsc-mafaddqrows
|
public |
Add quality data to a maf
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2024-12-12 |
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core-snp-filter
|
public |
Filtering sites (i.e. columns) in a FASTA-format whole-genome pseudo-alignment.
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2024-12-12 |
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ucsc-mafsinregion
|
public |
Extract MAFS in a genomic region
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2024-12-12 |
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ucsc-farc
|
public |
Reverse complement a FA file
|
2024-12-12 |
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ucsc-maftosnpbed
|
public |
finds SNPs in MAF and builds a bed with their functional consequence
|
2024-12-12 |
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ucsc-maskoutfa
|
public |
Produce a masked .fa file given an unmasked .fa and
|
2024-12-12 |
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ucsc-gff3topsl
|
public |
convert a GFF3 CIGAR file to a PSL file
|
2024-12-12 |
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smudgeplot_rn
|
public |
Inference of ploidy and heterozygosity structure using whole genome sequencing data. Fork of Kamil S. Jarons Smudgeplot.
|
2024-12-12 |
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pgenlib
|
public |
Python wrapper for pgenlib's basic reader and writer.
|
2024-12-12 |
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bayestyper
|
public |
A method for variant graph genotyping based on exact alignment of k-mers
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2024-12-12 |
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est-sfs
|
public |
est-sfs ( Keightley and Jackson, 2018) is a stand-alone implementation of a method to infer the unfolded site frequency spectrum (the uSFS) and ancestral state probabilities by maximum likelihood (ML).
|
2024-12-12 |
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links
|
public |
Long Interval Nucleotide K-mer Scaffolder
|
2024-12-12 |
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r-momf
|
public |
The package can fit single RNA-seq data set(SOMF) and multiple RNA-seq data sets (MOMF).
|
2024-12-12 |
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derna
|
public |
RNA sequence design for a target protein sequence.
|
2024-12-12 |
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gum
|
public |
A header-only library for representation of sequence graphs
|
2024-12-12 |
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mbg
|
public |
Minimizer based sparse de Bruijn graph constructor
|
2024-12-12 |
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daligner
|
public |
DALIGNER: Find all significant local alignments between reads
|
2024-12-12 |
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riblast
|
public |
RIblast is ultrafast RNA-RNA interaction prediction software.
|
2024-12-12 |
