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usearch
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public |
USEARCH is a unique sequence analysis tool which offers search and clustering algorithms that are often orders of magnitude faster than BLAST.
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2024-06-19 |
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ciri-full
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public |
Full length circRNA reconstruction and quantification using BSJ and reverse overlap (RO) features.
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2024-06-19 |
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seqverify
|
public |
Seqverify analyzes whole genome sequencing data for gene-editing verification.
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2024-06-18 |
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deepmicroclass
|
public |
DeepMicroClass, a deep learning based contig prediction tool
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2024-06-18 |
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clever-toolkit
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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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r-circrnafull
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public |
An R package for reconstruction of full length circRNA sequence using chimeric alignment information
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2024-06-18 |
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jccirc
|
public |
circRNA assembler through integrated junction contigs
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2024-06-17 |
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pyplink
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public |
Python module to read binary Plink files.
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2024-06-17 |
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r-dsb
|
public |
Normalizing and denoising protein expression data from droplet-based single cell profiling
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2024-06-17 |
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pypgx
|
public |
A Python package for pharmacogenomics research
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2024-06-16 |
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fuc
|
public |
Frequently used commands in bioinformatics
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2024-06-15 |
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r-tinyarray
|
public |
Gene Expression Omnibus(GEO) and The Cancer Genome Atlas(TCGA) are common bioinformatics public databases. We integrate the regular analysis and charts for expression data, to analyze and display the data concisely and intuitively.
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2024-06-14 |
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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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autometa
|
public |
Automated extraction of genomes from shotgun metagenomes
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2024-06-14 |
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tcfinder
|
public |
A lightweight tool to find clusters of samples within a phylogeny.
|
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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cosap
|
public |
COSAP - Comparative Sequencing Analysis Platform
|
2024-06-14 |
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humann
|
public |
HUMAnN: The HMP Unified Metabolic Analysis Network, version 3
|
2024-06-13 |
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metagraph
|
public |
Ultra Scalable Framework for DNA Search, Alignment, Assembly
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2024-06-13 |
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ngsderive
|
public |
Backwards derive attributes from NGS data
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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).
|
2024-06-13 |
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jcvi
|
public |
Python utility libraries on genome assembly, annotation, and comparative genomics
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2024-06-13 |
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physiofit
|
public |
Calculate extracellular fluxes from metabolite concentrations and biomass data
|
2024-06-13 |
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bamsurgeon
|
public |
Tools for adding genomic variants to BAM/SAM/CRAM files. Can be used to test variant callers.
|
2024-06-13 |
|
deepblast
|
public |
Neural Networks for Protein Sequence Alignment.
|
2024-06-13 |
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genomelake
|
public |
Simple and efficient random access to genomic data for deep learning models.
|
2024-06-12 |
|
genometools-genometools
|
public |
GenomeTools genome analysis system.
|
2024-06-12 |
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mmlong2
|
public |
An all-in-one genome-centric metagenomics workflow using long reads
|
2024-06-12 |
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sortmerna
|
public |
SortMeRNA is a biological sequence analysis tool for filtering, mapping and OTU-picking NGS reads.
|
2024-06-12 |
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firecloud
|
public |
API and CLI for Broad Institute's Firecloud workspace/workflow management service.
|
2024-06-12 |
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perl-getopt-long
|
public |
Module to handle parsing command line options
|
2024-06-12 |
|
ngs-smap
|
public |
SMAP is an analysis tool for stack-based NGS read mapping
|
2024-06-12 |
|
rlpipes
|
public |
A standardized R-loop-mapping pipeline
|
2024-06-12 |
|
pyranges
|
public |
Performant Pythonic GenomicRanges
|
2024-06-12 |
|
tbpore
|
public |
Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
|
2024-06-12 |
|
bioconductor-musicatk
|
public |
Mutational Signature Comprehensive Analysis Toolkit
|
2024-06-11 |
|
peakachu
|
public |
Peak calling tool for CLIP-seq data.
|
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 |
|
ffgc
|
public |
Family Free Genome Comparison (FFGC) workflow
|
2024-06-10 |
|
strcount
|
public |
A package to count the number of repeats in a Short Tandem Repeat Expansion from long reads.
|
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 |
|
unikmer
|
public |
A versatile toolkit for k-mers with taxonomic information
|
2024-06-09 |
|
dsh-bio
|
public |
Tools for BED, FASTA, FASTQ, GAF, GFA1/2, GFF3, PAF, SAM, and VCF files
|
2024-06-09 |
|
megalodon
|
public |
Nanopore modified base and sequence variant detection.
|
2024-06-09 |
|
smncopynumbercaller
|
public |
Call copy number of SMN1, SMN2, and SMN2Δ7–8 from a BAM file.
|
2024-06-09 |
|
elector
|
public |
ELECTOR EvaLuator of Error Correction Tools for lOng Reads
|
2024-06-09 |
|
taxpasta
|
public |
TAXonomic Profile Aggregation and STAndardisation
|
2024-06-08 |
|
pgr-tk
|
public |
A PanGenomic Research Took Kit. This repository is a project to provide Python and Rust libraries to facilitate pangenomics analysis.
|
2024-06-08 |
|
chips
|
public |
ChIPs is a tool for simulating ChIP-sequencing experiments.
|
2024-06-08 |
|
rsv-typer
|
public |
Genotyping RSV samples from nanopore sequencing data
|
2024-06-07 |
