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mummer4
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public |
MUMmer is a system for rapidly aligning entire genomes
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2024-06-19 |
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r-hemdag
|
public |
a collection of Hierarchical Ensemble Methods (HEMs) for Directed Acyclic Graphs (DAGs).
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2024-06-19 |
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alignlib-lite
|
public |
Simple wrapper around alignlib C++ library for sequence alignment
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2024-06-18 |
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blockclust
|
public |
Efficient clustering and classification of non-coding RNAs from short read RNA-seq profiles.
|
2024-06-18 |
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clever-toolkit
|
public |
The clever toolkit (CTK) is a suite of tools to analyze next-generation sequencing data and, in particular, to discover and genotype insertions and deletions from paired-end reads.
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2024-06-18 |
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fraggenescan
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public |
FragGeneScan is an application for finding (fragmented) genes in short reads.
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2024-06-18 |
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phyml
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public |
Phylogenetic estimation using (Maximum) Likelihood
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2024-06-18 |
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porechop
|
public |
Adapter removal and demultiplexing of Oxford Nanopore reads
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2024-06-18 |
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cooler
|
public |
Sparse binary format for genomic interaction matrices.
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2024-06-18 |
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perl-dbd-pg
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public |
DBI PostgreSQL interface
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2024-06-18 |
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snp-sites
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public |
Finds SNP sites from a multi-FASTA alignment file.
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2024-06-17 |
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nanomath
|
public |
A few simple math function for other Oxford Nanopore processing scripts
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2024-06-14 |
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mgkit
|
public |
Metagenomics Framework
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2024-06-14 |
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pbcopper
|
public |
Core C++ library for data structures, algorithms, and utilities
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2024-06-14 |
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genepop
|
public |
Population Genetic Data Analysis package.
|
2024-06-14 |
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r-spp
|
public |
Analysis of ChIP-seq and other functional sequencing data [Kharchenko PV (2008) <DOI:10.1038/nbt.1508>].
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2024-06-14 |
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velvet
|
public |
Sequence Assembler for short reads
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2024-06-14 |
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fastsimbac
|
public |
Models bacterial recombination
|
2024-06-13 |
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gatb
|
public |
The Genome Analysis Toolbox with de-Bruijn graph
|
2024-06-13 |
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dinopy
|
public |
DNA input and output library for Python and Cython. Includes reader and writer for FASTA and FASTQ files, support for samtools faidx files, and generators for solid and gapped q-grams (k-mers).
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2024-06-13 |
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primer3
|
public |
Design PCR primers from DNA sequence. From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it.
|
2024-06-13 |
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jcvi
|
public |
Python utility libraries on genome assembly, annotation, and comparative genomics
|
2024-06-13 |
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swarm
|
public |
A robust and fast clustering method for amplicon-based studies.
|
2024-06-13 |
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genomelake
|
public |
Simple and efficient random access to genomic data for deep learning models.
|
2024-06-12 |
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perl-bio-db-hts
|
public |
Read files using HTSlib including BAM/CRAM, Tabix and BCF database files
|
2024-06-12 |
|
genometools-genometools
|
public |
GenomeTools genome analysis system.
|
2024-06-12 |
|
sortmerna
|
public |
SortMeRNA is a biological sequence analysis tool for filtering, mapping and OTU-picking NGS reads.
|
2024-06-12 |
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perl-xml-libxslt
|
public |
Interface to GNOME libxslt library
|
2024-06-12 |
|
perl-getopt-long
|
public |
Module to handle parsing command line options
|
2024-06-12 |
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mykrobe
|
public |
Antibiotic resistance prediction in minutes
|
2024-06-11 |
|
ncbi-ngs-sdk
|
public |
NGS is a new, domain-specific API for accessing reads, alignments and pileups produced from Next Generation Sequencing.
|
2024-06-11 |
|
glimmerhmm
|
public |
No Summary
|
2024-06-11 |
|
peakachu
|
public |
Peak calling tool for CLIP-seq data.
|
2024-06-11 |
|
fermi2
|
public |
Fermi2 focuses on the exploration of FMD-index as a graph.
|
2024-06-11 |
|
ropebwt2
|
public |
Incremental construction of FM-index for DNA sequences
|
2024-06-11 |
|
razers3
|
public |
RazerS 3 - Faster, fully sensitive read mapping
|
2024-06-11 |
|
elprep
|
public |
elPrep is a high-performance tool for preparing .sam/.bam files for variant calling in sequencing pipelines. It can be used as a drop-in replacement for SAMtools/Picard/GATK4.
|
2024-06-11 |
|
htseq
|
public |
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
|
2024-06-11 |
|
bwapy
|
public |
Bwapy provides python wrappers for bwa.
|
2024-06-11 |
|
nanopolish
|
public |
Signal-level algorithms for MinION data.
|
2024-06-11 |
|
methyldackel
|
public |
A (mostly) universal methylation extractor for BS-seq experiments. Formerly named PileOMeth.
|
2024-06-10 |
|
macs2
|
public |
Model Based Analysis for ChIP-Seq data
|
2024-06-10 |
|
motifscan
|
public |
A package for motif discovery and motif enrichment analysis
|
2024-06-09 |
|
gembs
|
public |
gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (WGBS).
|
2024-06-09 |
|
graphaligner
|
public |
Sequence to graph aligner for long reads
|
2024-06-09 |
|
mageck
|
public |
MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout), an algorithm to process, QC, analyze and visualize CRISPR screening data.
|
2024-06-09 |
|
salmon
|
public |
Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
|
2024-06-09 |
|
vt
|
public |
A tool set for short variant discovery in genetic sequence data
|
2024-06-09 |
|
dsh-bio
|
public |
Tools for BED, FASTA, FASTQ, GAF, GFA1/2, GFF3, PAF, SAM, and VCF files
|
2024-06-09 |
|
umis
|
public |
Tools for processing UMI RNA-tag data
|
2024-06-09 |
