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uropa
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public |
UROPA (Universal RObust Peak Annotator) is a command line based tool, intended for genomic region annotation from e.g. peak calling.
It detects the most appropriate annotation by taking parameters such as feature type, anchor, direction and strand into account.
Furthermore, it allows filtering for GTF attribute values, e.g. protein_coding.
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2023-10-22 |
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knock-knock
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public |
toolkit for analyzing CRISPR knock-in experiments
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2023-10-20 |
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rapgreen
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public |
Manipulate and annotate phylogenetic trees
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2023-10-19 |
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talon
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public |
TALON is a Python package for identifying and quantifying known and novel
genes/isoforms in long-read transcriptome data sets. TALON is
technology-agnostic in that it works from mapped SAM files,
allowing data from different sequencing platforms
(i.e. PacBio and Oxford Nanopore) to be analyzed side by side.
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2023-10-18 |
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redundans
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public |
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
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2023-10-18 |
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metapi
|
public |
A general metagenomics data mining system focus on robust microbiome research
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2023-10-18 |
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hamronization
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public |
Tool to convert and summarize AMR gene detection outputs using the hAMRonization specification
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2023-10-18 |
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deepdirect
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public |
In silico approach to generate mutations for protein complexes towards a specified direction (increase/decrease) in binding affinity.
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2023-10-18 |
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t1dgrs2
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public |
Generate a Type 1 Diabetes Genetic Risk Score (T1D GRS) that accounts for interactions between HLA DR-DQ risk haplotypes.
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2023-10-18 |
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nii2dcm
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public |
nii2dcm: NIfTI to DICOM creation with Python
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2023-10-18 |
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cromshell
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public |
Command-line interface to the Cromwell workflow manager
|
2023-10-17 |
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fcsparser
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public |
A python package for reading raw fcs files
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2023-10-17 |
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snpsift
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public |
Toolbox that allows you to filter and manipulate annotated files
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2023-10-17 |
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fiji-morpholibj
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public |
MorphoLibJ is a collection of mathematical morphology methods and plugins for ImageJ, created at INRA-IJPB Modeling and Digital Imaging lab.
|
2023-10-16 |
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rabies
|
public |
RABIES: Rodent Automated Bold Improvement of EPI Sequences.
|
2023-10-15 |
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corgi
|
public |
Classifier for ORganelle Genomes Inter alia
|
2023-10-14 |
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scrnasim-toolz
|
public |
Tools used by scRNAsim workflow.
|
2023-10-14 |
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fastagap
|
public |
Count and remove missing data in fasta-formatted sequence data
|
2023-10-12 |
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neoloop
|
public |
Predict neo-loops induced by structural variations
|
2023-10-12 |
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varfish-annotator-cli
|
public |
Annotate variants for import into VarFish Server.
|
2023-10-11 |
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tadlib
|
public |
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
|
2023-10-11 |
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seqstr
|
public |
Lightweight tool to compile simple string input into long genomic sequences
|
2023-10-11 |
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rrmscorer
|
public |
RRMScorer (RRM-RNA score predictor) predicts how likely a single RRM is to bind ssRNA
|
2023-10-10 |
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pythoncyc
|
public |
A Python interface to Pathway Tools, 2019 update
|
2023-10-10 |
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phytest
|
public |
Quality control for phylogenetic pipelines using pytest
|
2023-10-10 |
|
kosudoku
|
public |
kosudoku: a suite to rapidly create whole genome knockout collections for microorganisms
|
2023-10-08 |
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asciigenome
|
public |
Command-line genome browser running from terminal window and solely based on ASCII characters
|
2023-10-08 |
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scanorama
|
public |
Panoramic stitching of heterogeneous single-cell transcriptomic data
|
2023-10-08 |
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noise2read
|
public |
Turn noise to read
|
2023-10-07 |
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biocantor
|
public |
Coordinate Maniuplation and Genome Annotation Data Model
|
2023-10-07 |
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cascade-config
|
public |
Cascading configuration from the CLI and config files.
|
2023-10-06 |
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hafez
|
public |
A tool for identifying active prophage elements through read mapping
|
2023-10-04 |
|
ksw
|
public |
Ksw: (interactive) smith-waterman in C
|
2023-10-04 |
|
sem
|
public |
A nucleosome calling package for nucleosome subtype detection
|
2023-10-04 |
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actc
|
public |
PacBio utility to align clr to ccs reads
|
2023-10-04 |
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svjedi-graph
|
public |
SVJedi-graph is a structural variation (SV) genotyper for long read data using a variation graph to represent SVs.
|
2023-10-04 |
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bactopia-sketcher
|
public |
Methods used by Bactopia for minmer sketching
|
2023-10-03 |
|
ice-cream
|
public |
ICEcream: Integrative and Conjugative Elements Classification and gRaphical gEne Arrangement Method
|
2023-10-03 |
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sequip
|
public |
Perl module for biological sequence analysis and supporting utilities..
|
2023-10-03 |
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demultiplexer
|
public |
python tool to demultiplex illumina reads tagged with the leeselab tagging scheme
|
2023-10-03 |
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lrtk
|
public |
This is a unified and versatile ToolKit for analyzing Linked-Read sequencing data.
|
2023-10-02 |
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galaxyxml
|
public |
Galaxy XML generation library
|
2023-10-02 |
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pyjaspar
|
public |
pyJASPAR: a serverless interface to Biopython to access different versions of JASPAR database
|
2023-09-27 |
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perl-fastx-reader
|
public |
FASTX::Reader, Perl module to parse FASTA and FASTQ files
|
2023-09-26 |
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metaprokka
|
public |
A fork of Prokka using Prodigal-GV for phage annotation and metagenome/metavirome tweaks
|
2023-09-26 |
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ribotish
|
public |
Ribo TIS Hunter (Ribo-TISH) identifies translation activities using ribosome profiling data.
|
2023-09-25 |
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prokka
|
public |
Rapid annotation of prokaryotic genomes
|
2023-09-23 |
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go-figure
|
public |
GO-Figure! offers a simple solution for command-line plotting of informative summary visualisations of lists of GO terms, designed to support exploratory data analyses and multiple dataset comparisons.
|
2023-09-23 |
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r-metablastr
|
public |
The metablastr package harnesses the power of BLAST by providing interface functions between it and R.
|
2023-09-22 |
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aquamis
|
public |
AQUAMIS is a snakemake pipeline for routine assembly and quality assessment of microbial isolate sequencing experiments.
|
2023-09-20 |
