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hisat2
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public |
Graph-based alignment of next generation sequencing reads to a population of genomes.
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2020-06-06 |
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angsd
|
public |
ANGSD: Analysis of next generation Sequencing Data
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2020-06-06 |
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bowtie2
|
public |
Fast and sensitive read alignment
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2020-06-06 |
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sexdeterrmine
|
public |
A python script carry out calculate the relative coverage of X and Y chromosomes, and their associated error bars, out of capture data.
|
2020-06-06 |
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vcontact2
|
public |
Viral Contig Automatic Clustering and Taxonomy
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2020-06-06 |
|
plasmidid
|
public |
Pipeline for plasmid identification and reconstruction
|
2020-06-06 |
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cell-types-analysis
|
public |
A suite of scripts for analysis of scRNA-seq cell type classification tools outputs.
|
2020-06-06 |
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popdel
|
public |
Fast structural deletion calling on population-scale short read paired-end germline WGS data.
|
2020-06-06 |
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stringmeup
|
public |
A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.
|
2020-06-06 |
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binsanity
|
public |
Method to cluster contigs based a biphasic method with coverage and composition
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2020-06-06 |
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phyloflash
|
public |
phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore
phylogenetic composition of an illumina (meta)genomic dataset.
|
2020-06-06 |
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entrezpy
|
public |
Entrezpy is a dedicated Python library to interact with NCBI Entrez databases
|
2020-06-06 |
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hiline
|
public |
HiC alignment and classification pipeline.
|
2020-06-06 |
|
atropos
|
public |
trim adapters from high-throughput sequencing reads
|
2020-06-06 |
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mapcaller
|
public |
MapCaller: combined short-read mapper and variant caller
|
2020-06-06 |
|
rnabloom
|
public |
Java tool for RNA-seq assembly
|
2020-06-06 |
|
recognizer
|
public |
A tool for domain based annotation with the COG database
|
2020-06-06 |
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chira
|
public |
An integrated framework for annotation and visualization of chimeric reads.
|
2020-06-06 |
|
negative_training_sampler
|
public |
Generates negative samples with the same GC distribution as the positive samples per chromosome.
|
2020-06-05 |
|
pomoxis
|
public |
Assembly, consensensus, and analysis tools by ONT research
|
2020-06-05 |
|
sequencetools
|
public |
Tools for population genetics on sequencing data
|
2020-06-05 |
|
bbmap
|
public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
|
2020-06-05 |
|
r-minionqc
|
public |
Quality control for MinION sequencing data
|
2020-06-05 |
|
kcalign
|
public |
Kalgin-based codon-aware aligner for multiple sequences
|
2020-06-05 |
|
svist4get
|
public |
A simple visualization tool for genomic tracks from sequencing experiments
|
2020-06-05 |
|
scirpy
|
public |
A Scanpy extension for analyzing single-cell T-cell receptor sequencing data.
|
2020-06-05 |
|
agat
|
public |
Another Gff Analysis Toolkit (AGAT). Suite of tools to handle gene annotations in any GTF/GFF format.
|
2020-06-05 |
|
panpasco
|
public |
Pipeline for pangenome mapping and pairwise SNP distance
|
2020-06-05 |
|
parsnp
|
public |
Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection.
|
2020-06-05 |
|
rmats
|
public |
MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data.
|
2020-06-04 |
|
samblaster
|
public |
Mark duplicates in and extract discordant and split reads from SAM files.
|
2020-06-04 |
|
stream
|
public |
STREAM Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data http://stream.pinellolab.org
|
2020-06-04 |
|
msstitch
|
public |
MS proteomics post processing utilities
|
2020-06-04 |
|
snakemake-minimal
|
public |
A popular workflow management system aiming at full in-silico reproducibility.
|
2020-06-04 |
|
snakemake
|
public |
A popular workflow management system aiming at full in-silico reproducibility.
|
2020-06-04 |
|
ena-upload-cli
|
public |
Command Line Interface to upload data to the European Nucleotide Archive
|
2020-06-04 |
|
fgbio
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2020-06-04 |
|
treemaker
|
public |
A python tool for generating a Newick formatted tree from alist of classifications
|
2020-06-04 |
|
dart
|
public |
Dart: a fast and accurate RNA-seq mapper
|
2020-06-04 |
|
igv
|
public |
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics
data and annotations.
|
2020-06-04 |
|
tag
|
public |
Genome annotation data analysis and management implemented in pure Python.
|
2020-06-04 |
|
tb-profiler
|
public |
Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from WGS data
|
2020-06-04 |
|
apollo
|
public |
WebApollo API library
|
2020-06-04 |
|
subread
|
public |
High-performance read alignment, quantification, and mutation discovery
|
2020-06-04 |
|
moabs
|
public |
Methylation analysis on Bisulfite-Sequencing reads
|
2020-06-03 |
|
kssd
|
public |
K-mer substring space decomposition
|
2020-06-03 |
|
artic
|
public |
ARTIC pipeline - a bioinformatics pipeline for working with virus sequencing data sequenced with nanopore
|
2020-06-03 |
|
gsort
|
public |
sort genomic files according to a genomefile
|
2020-06-03 |
|
varlociraptor
|
public |
Flexible, uncertainty-aware variant calling with parameter free filtration via FDR control.
|
2020-06-03 |
|
python-chado
|
public |
A Python library for interacting with Chado database.
|
2020-06-03 |