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metaclock
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public |
A python package for facilitating strain-level phylogenetic and molecular clock analysis
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2023-06-16 |
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anadama2
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public |
AnADAMA2: Another Automated Data Analysis Management Application 2
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2023-06-16 |
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codingorf
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public |
codingorf: The codingorf finds translatable ORFs from an input sequence
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2023-06-16 |
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magcluster
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public |
Magnetosome gene cluster identification, annotation and visualization tool
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2023-06-16 |
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cytocad
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public |
Large copy-number variation detector with low-depth whole-genome sequencing data
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2023-06-16 |
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gromacswrapper
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public |
GromacsWrapper wraps system calls to GROMACS tools into thin Python classes.
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2023-06-16 |
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numkit
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public |
Numerical first aid kit (with numpy/scipy).
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2023-06-16 |
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rd-analyzer
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public |
In silico region of difference (RD) analysis of Mycobacterium tuberculosis complex from sequence reads
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2023-06-16 |
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viralverify
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public |
viral contig verification tool
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2023-06-16 |
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nopilesum
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public |
nopilesum is a D program that functions as an alternative to GATK4's GetPileupSummaries.
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2023-06-16 |
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domino
|
public |
AMI algorithm with low rate of false calls
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2023-06-16 |
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hesslab-gambit
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public |
IMPORTANT: This recipe is out of date. Use "gambit" instead: http://bioconda.github.io/recipes/gambit/README.html
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2023-06-16 |
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titan-gc
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public |
Command-line version of the Titan genomic characterization workflow for viral pathogens of concern.
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2023-06-16 |
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variabel
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public |
Variabel is a novel approach and method for intrahost variant detection on ONT data, which outperforms existing ONT variant callers.
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2023-06-16 |
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sonneityping
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public |
Sonneityping parses the output of mykrobe predict for Shigella sonnei
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2023-06-16 |
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telr
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public |
A a fast non-reference transposable element (TE) detector from long read (LR) sequencing data (PacBio or Oxford Nanopore).
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2023-06-16 |
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endorspy
|
public |
endorS.py calculates endogenous DNA from samtools flagstat files and print to screen
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2023-06-16 |
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hgvs
|
public |
HGVS Parser, Formatter, Mapper, Validator
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2023-06-16 |
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megapath-nano
|
public |
MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read Metagenomics; MegaPath-Nano-Amplicon: filtering module for metagenomic amplicon data; MegaPath-Nano-Amplicon: filtering module for metagenomic amplicon data
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2023-06-16 |
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lrphase
|
public |
Phasing individual long reads using known haplotype information.
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2023-06-16 |
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mstmap
|
public |
Accurate construction of genetic maps (Wu et al., PLoS Genetics, 4(10):e1000212, 2008)
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2023-06-16 |
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ssdrippipeline
|
public |
Useful tools for the analysis of ssDRIP-seq data
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2023-06-16 |
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ngs_te_mapper2
|
public |
A program to identify transposable element insertions using next generation sequencing data.
|
2023-06-16 |
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peakhood
|
public |
Individual site context extraction for CLIP-Seq peak regions
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2023-06-16 |
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aquilasv
|
public |
A region-based diploid assembly and variants calling tool
|
2023-06-16 |
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deepsignal-plant
|
public |
A deep-learning method for detecting DNA methylation state from Oxford Nanopore sequencing reads of plants
|
2023-06-16 |
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irida-staramr-results
|
public |
IRIDA StarAMR Results program enables StarAMR analysis results that were run through IRIDA to be batch downloaded into a collection of spreadsheets using the command line.
|
2023-06-16 |
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aquila_sv
|
public |
Diploid assembly and variants calling tool
|
2023-06-16 |
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miru-hero
|
public |
Compute MIRU and Spoligotype from a M. tuberculosis genome
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2023-06-16 |
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htsqualc
|
public |
HTSQualC is an automated quality control analysis tool for a single and paired-end high-throughput sequencing data (HTS)
|
2023-06-16 |
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singlecellnet-cli
|
public |
A set of command-line wrappers for the core functions in the SingleCellNet package.
|
2023-06-16 |
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clusterone
|
public |
Graph clustering algorithm
|
2023-06-16 |
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metaplatanus
|
public |
MetaPlatanus: A hybrid metagenome assembler
|
2023-06-16 |
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iptkl
|
public |
IPTK is a library specialized in the analysis of HLA-peptidomes identified through an immunopeptidomics pipeline.
|
2023-06-16 |
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mixem
|
public |
Expectation-Maximization (EM) algorithm for fitting mixtures of probability distributions
|
2023-06-16 |
|
preface
|
public |
PREFACE -- PREdict FetAl ComponEnt
|
2023-06-16 |
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rjchallis-assembly-stats
|
public |
Assembly metric visualisations to facilitate rapid assessment and comparison of assembly quality.
|
2023-06-16 |
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fade
|
public |
fade is a D program that provides fast identification and removal of enzymatic fragmentation artifacts.
|
2023-06-16 |
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recontig
|
public |
recontig is a D program and python package that provides fast conversion of contig names between naming conventions for GFF, VCF/BCF, SAM/BAM, and BED files.
|
2023-06-16 |
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coast
|
public |
Alignment search tool that identifies similar proteomes.
|
2023-06-16 |
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comut
|
public |
A Python library for creating comutation plots to visualize genomic and phenotypic information
|
2023-06-16 |
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deepsig
|
public |
Predictor of signal peptides in proteins based on deep learning
|
2023-06-16 |
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microphaser
|
public |
Phasing small tumor DNA sequences for mutated neopeptide generation from NGS data.
|
2023-06-16 |
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iqkm
|
public |
Identification and quantification of KEGG Modules in metagenomes/genomes
|
2023-06-16 |
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scallop-umi
|
public |
A reference-based transcript assembler for linked-reads RNA-seq data.
|
2023-06-16 |
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taranis
|
public |
Pipeline for wg/cgMLST allele calling
|
2023-06-16 |
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pyfba
|
public |
Python-based Flux Balance Analysis using the ModelSEED
|
2023-06-16 |
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alignment
|
public |
Native Python library for generic sequence alignment.
|
2023-06-16 |
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gait-gm
|
public |
GAIT-GM - Modeling Metabolites as a function of gene expression
|
2023-06-16 |
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pycrac
|
public |
Python NextGen sequencing data processing software
|
2023-06-16 |
