|
bfc
|
public |
BFC is a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data.
|
2024-12-13 |
|
ucsc-hggcpercent
|
public |
Calculate GC Percentage in 20kb windows
|
2024-12-13 |
|
ucsc-parafetch
|
public |
try to fetch url with multiple connections
|
2024-12-13 |
|
ucsc-gmtime
|
public |
convert unix timestamp to date string
|
2024-12-13 |
|
ucsc-subcolumn
|
public |
Substitute one column in a tab-separated file.
|
2024-12-13 |
|
ucsc-farandomize
|
public |
Program to create random fasta records
|
2024-12-13 |
|
ucsc-pslpretty
|
public |
Convert PSL to human-readable output
|
2024-12-13 |
|
perl-crypt-openssl-random
|
public |
No Summary
|
2024-12-13 |
|
razers3
|
public |
RazerS 3 - Faster, fully sensitive read mapping
|
2024-12-13 |
|
bamtools
|
public |
C++ API & command-line toolkit for working with BAM data
|
2024-12-13 |
|
ucsc-bedtopsl
|
public |
convert bed format files to psl format
|
2024-12-13 |
|
ucsc-subchar
|
public |
Substitute one character for another throughout a file.
|
2024-12-13 |
|
mcl
|
public |
MCL - a cluster algorithm for graphs
|
2024-12-13 |
|
eigensoft
|
public |
The EIGENSOFT package implements methods for analzing population structure and performing stratification correction
|
2024-12-13 |
|
simlord
|
public |
SimLoRD is a read simulator for long reads from third generation sequencing. Currently, it supports the Pacific Biosciences SMRT error model.
|
2024-12-12 |
|
bayescan
|
public |
Phylogenetics - Randomized Axelerated Maximum Likelihood.
|
2024-12-12 |
|
cd-hit-auxtools
|
public |
Clusters and compares protein or nucleotide sequences
|
2024-12-12 |
|
fastq-tools
|
public |
A collection of fastq manipulation scripts written in C for speed.
|
2024-12-12 |
|
perl-perlio-gzip
|
public |
PerlIO interface to gzip/gunzip
|
2024-12-12 |
|
genepop
|
public |
Population Genetic Data Analysis package.
|
2024-12-12 |
|
ucsc-fasomerecords
|
public |
Extract multiple fa records
|
2024-12-12 |
|
zagros
|
public |
No Summary
|
2024-12-12 |
|
perl-findbin-real
|
public |
Locates the full path to the script bin directory to allow the use of paths relative to the bin directory.
|
2024-12-12 |
|
perl-list-someutils
|
public |
Provide the stuff missing in List::Util
|
2024-12-12 |
|
bloocoo
|
public |
Bloocoo is a k-mer spectrum-based read error corrector, designed to correct large datasets with a very low memory footprint. As an example, it can correct whole human genome re-sequencing reads at 70 x coverage with less than 4GB of memory.
|
2024-12-12 |
|
cofold
|
public |
An RNA secondary structure prediction method that takes co-transcriptional folding into account.
|
2024-12-12 |
|
nmrglue
|
public |
A module for working with NMR data in Python
|
2024-12-12 |
|
trf
|
public |
Tandem Repeats Finder is a program to locate and display tandem repeats in DNA sequences.
|
2024-12-12 |
|
ucsc-countchars
|
public |
Count the number of occurrences of a particular char
|
2024-12-12 |
|
vcftools
|
public |
A set of tools written in Perl and C++ for working with VCF files. This package only contains the C++ libraries whereas the package perl-vcftools-vcf contains the perl libraries
|
2024-12-12 |
|
seqtk
|
public |
Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format
|
2024-12-12 |
|
ucsc-wordline
|
public |
chop up words by white space and output them with one
|
2024-12-12 |
|
ucsc-netsplit
|
public |
Split a genome net file into chromosome net files
|
2024-12-12 |
|
ucsc-qacagplift
|
public |
Use AGP to combine per-scaffold qac into per-chrom qac.
|
2024-12-12 |
|
bamhash
|
public |
No Summary
|
2024-12-12 |
|
ucsc-faalign
|
public |
Align two fasta files
|
2024-12-12 |
|
evidencemodeler
|
public |
Evidence Modeler combines ab intio gene predictions, protein alignments, and transcript alignments into weighted consensus gene structures
|
2024-12-12 |
|
assemblyutility
|
public |
No Summary
|
2024-12-12 |
|
python-hyphy-python
|
public |
HyPhy package interface library
|
2024-12-12 |
|
fastsimbac
|
public |
Models bacterial recombination
|
2024-12-12 |
|
ucsc-catdir
|
public |
concatenate files in directory to stdout.
|
2024-12-12 |
|
ucsc-fatotab
|
public |
convert fa file to tab separated file
|
2024-12-12 |
|
ucsc-getrnapred
|
public |
Get virtual RNA for gene predictions
|
2024-12-12 |
|
r-loom
|
public |
An interface for the single-cell RNAseq-oriented loom format. Loom files are an HDF5-based format for storing and interacting with large single-cell RNAseq datasets. loomR provides an interface for working with loom files in a loom-specific way; we provide routines for validating loom files, iterating with chunks through data within the loom file, and provide a platform for other packages to build support for loom files.
|
2024-12-12 |
|
ucsc-mafsplit
|
public |
Split multiple alignment files
|
2024-12-12 |
|
snp-dists
|
public |
Convert a FASTA alignment to SNP distance matrix
|
2024-12-12 |
|
aragorn
|
public |
ARAGORN, tRNA (and tmRNA) detection
|
2024-12-12 |
|
mappy
|
public |
Minimap2 Python binding
|
2024-12-12 |
|
ucsc-pslmap
|
public |
map PSLs alignments to new targets using alignments of
|
2024-12-12 |
|
ucsc-psltobed
|
public |
transform a psl format file to a bed format file.
|
2024-12-12 |
