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smartdenovo
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public |
Ultra-fast de novo assembler using long noisy reads
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2024-12-12 |
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ucsc-headrest
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public |
Return all *but* the first N lines of a file.
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2024-12-12 |
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dnp-binstrings
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public |
Convert fasta strings into dinucleotide binary indicator string as 00101...
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2024-12-12 |
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ucsc-mafranges
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public |
Extract ranges of target (or query) coverage from maf and
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2024-12-12 |
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r-acidgenerics
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public |
S4 generic functions for Acid Genomics packages.
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2024-12-12 |
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uvaia
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public |
Reference-based alignment and sequence database search
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2024-12-12 |
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ucsc-hgloadchain
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public |
Load a generic Chain file into database
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2024-12-12 |
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ucsc-pslcdnafilter
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public |
Filter cDNA alignments in psl format. Filtering criteria are comparative, selecting near best in genome alignments for each given cDNA and non-comparative, based only on the quality of an individual alignment.
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2024-12-12 |
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ucsc-estorient
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public |
Read ESTs from a database and determine orientation based on estOrientInfo table or direction in gbCdnaInfo table. Update PSLs so that the strand reflects the direction of transcription. By default, PSLs where the direction can't be determined are dropped.
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2024-12-12 |
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ucsc-expmatrixtobarchartbed
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public |
Generate a barChart bed6+5 file from a matrix, meta data, and coordinates.
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2024-12-12 |
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r-tftargets
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public |
Human transcription factor target genes.
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2024-12-12 |
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fastq-join
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public |
Similar to audy's stitch program, but in C, more efficient and supports some automatic benchmarking and tuning. It uses the same "squared distance for anchored alignment" as other tools.
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2024-12-12 |
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lighter
|
public |
Lighter is a kmer-based error correction method for whole genome sequencing data
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2024-12-12 |
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ont_vbz_hdf_plugin
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public |
VBZ compression plugin for nanopore signal data
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2024-12-12 |
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chromsize
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public |
just get your chrom sizes
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2024-12-12 |
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rapidnj
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public |
RapidNJ is an algorithmic engineered implementation of canonical neighbour-joining. It uses an efficient search heuristic to speed-up the core computations of the neighbour-joining method that enables RapidNJ to outperform other state-of-the-art neighbour-joining implementations.
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2024-12-12 |
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physlr
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public |
Physlr; Next-generation Physical Maps
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2024-12-12 |
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mawk
|
public |
mawk is an interpreter for the AWK Programming Language.
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2024-12-12 |
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quickmerge
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public |
Quickmerge uses a simple concept to improve contiguity of genome assemblies based on long molecule sequences.
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2024-12-12 |
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viennarna
|
public |
ViennaRNA package -- RNA secondary structure prediction and comparison
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2024-12-12 |
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emerald
|
public |
Unlocking the suboptimal pairwise alignment space for protein sequences
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2024-12-12 |
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pgrc
|
public |
A tool for compressing the DNA stream of FASTQ datasets.
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2024-12-12 |
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r-vision
|
public |
A high-throughput and unbiased module for interpreting scRNA-seq data.
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2024-12-12 |
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edena
|
public |
No Summary
|
2024-12-12 |
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stark
|
public |
A tool for bluntifying a bidirected de bruijn graph by removing overlaps.
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2024-12-12 |
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fastutils
|
public |
A light toolkit for parsing, manipulating and analysis of FASTA and FASTQ files
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2024-12-12 |
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floria
|
public |
Floria is method for recovering strain-level haplotypes and clusters of reads from metagenomic short or long read sequencing data by haplotype phasing.
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2024-12-12 |
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fastme
|
public |
a comprehensive, accurate and fast distance-based phylogeny inference program.
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2024-12-12 |
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alder
|
public |
The ALDER software computes the weighted linkage disequilibrium (LD) statistic for making inference about population admixture
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2024-12-12 |
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pblat
|
public |
blat with multi-threads support
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2024-12-12 |
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goat
|
public |
Query metadata for any taxon across the tree of life.
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2024-12-12 |
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autogrid
|
public |
AutoDock is a suite of automated docking tools.
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2024-12-12 |
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perl-bloom-faster
|
public |
Perl extension for the c library libbloom.
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2024-12-12 |
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emboss
|
public |
The European Molecular Biology Open Software Suite
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2024-12-12 |
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dnp-fourier
|
public |
Periodogram of dinucleotide frequency pattern
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2024-12-12 |
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disty
|
public |
Disty McMatrixface - compute a distance matrix from a core genome alignment file.
|
2024-12-12 |
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kseqpp
|
public |
C++11 re-implementation of kseq by Heng Li
|
2024-12-11 |
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hic-straw
|
public |
Straw bound with pybind11
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2024-12-11 |
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radsex
|
public |
The radsex software is part of RADSex, a computational workflow for the analysis of sex-determination using RAD-Sequencing data.
|
2024-12-11 |
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dextractor
|
public |
Bax File Decoder and Data Compressor
|
2024-12-11 |
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metaeuk
|
public |
MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
|
2024-12-11 |
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gfa1
|
public |
gfa1 toolkit
|
2024-12-11 |
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plek
|
public |
Predictor of long non-coding RNAs and mRNAs based on k-mer scheme.
|
2024-12-11 |
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flash2
|
public |
Merge paired-end reads from fragments that are shorter than twice the read length
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2024-12-11 |
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plass
|
public |
Plass (Protein-Level ASSembler) and PenguiN (Protein-guided Nucleotide assembler) are methods to assemble short read sequencing data on a protein level to proteins or DNA contigs
|
2024-12-11 |
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prequal
|
public |
a pre-alignment quality filter for comparative sequence analyses
|
2024-12-11 |
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perl-config-any
|
public |
Load configuration from different file formats, transparently
|
2024-12-11 |
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mdasim
|
public |
This is MDAsim 2+, a tool to simulate whole genome amplification of a DNA sequence with multiple displacement amplification. A citation for this version will be provided when available. MDAsim 2+ extends MDAsim 1.2, so please also always cite: Tagliavi Z, Draghici S. MDAsim: A multiple displacement amplification simulator. 2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). 2012. pp. 1–4. doi:10.1109/BIBM.2012.6392622
|
2024-12-11 |
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blend-bio
|
public |
BLEND is a Fast, Memory-Efficient, and Accurate Mechanism to Find Fuzzy Seed Matches in Genome Analysis
|
2024-12-11 |
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ucsc-hubpubliccheck
|
public |
checks that the labels in hubPublic match what is in the hub labels
|
2024-12-11 |
