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wfmash
|
public |
a pangenome-scale aligner
|
2024-09-02 |
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blast2galaxy
|
public |
A Python package with a CLI and API to perform BLAST queries against Galaxy servers
|
2024-09-02 |
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lexicmap
|
public |
efficient sequence alignment against millions of prokaryotic genomes
|
2024-09-01 |
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tigmint
|
public |
Correct misassemblies using linked or long reads
|
2024-09-01 |
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oarfish
|
public |
oarfish is a tool for fast, accurate and versatile transcript quantification from long-read RNA-seq data
|
2024-08-31 |
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python-bioext
|
public |
A few handy bioinformatics tools not already in BioPython
|
2024-08-31 |
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scoring-matrices
|
public |
Dependency free, Cython-compatible scoring matrices to use with biological sequences.
|
2024-08-31 |
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sorted_nearest
|
public |
Find nearest interval.
|
2024-08-30 |
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flye
|
public |
A fast and accurate de novo assembler for single molecule sequencing reads using repeat graphs.
|
2024-08-30 |
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dbcanlight
|
public |
A lightweight CAZyme annotation tool
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2024-08-30 |
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samestr
|
public |
SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.
|
2024-08-30 |
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fastahack
|
public |
No Summary
|
2024-08-30 |
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ezomero
|
public |
A module with convenience functions for writing Python code that interacts with OMERO
|
2024-08-30 |
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ntm-profiler
|
public |
Profiling tool for NTM to detect species and resistance from WGS data
|
2024-08-30 |
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pathogen-profiler
|
public |
Library giving access to classes and functions to create a profiling tool to look for mutations from NGS data.
|
2024-08-30 |
|
inspector
|
public |
Accurate long-read de novo assembly evaluation with Inspector
|
2024-08-30 |
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evidencemodeler
|
public |
Evidence Modeler combines ab intio gene predictions, protein alignments, and transcript alignments into weighted consensus gene structures
|
2024-08-30 |
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vcontact3
|
public |
Viral Contig Automatic Clustering and Taxonomy
|
2024-08-29 |
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kegalign-full
|
public |
KegAlign: A Scalable GPU-Based Whole Genome Aligner
|
2024-08-29 |
|
cnmf
|
public |
Consensus NMF for scRNA-Seq data.
|
2024-08-29 |
|
lotus2
|
public |
LotuS2 is a lightweight complete 16S/18S/ITS pipeline
|
2024-08-29 |
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anndata2ri
|
public |
Convert between AnnData and SingleCellExperiment
|
2024-08-29 |
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assembly_finder
|
public |
Snakemake-powered cli pipeline to download genomes with NCBI datasets
|
2024-08-29 |
|
r-cobrar
|
public |
COnstraint-based Reconstruction and Analysis (COBRA) of metabolic networks in R
|
2024-08-29 |
|
wisecondorx
|
public |
WIthin-SamplE COpy Number aberration DetectOR, including sex chromosomes
|
2024-08-29 |
|
pango-collapse
|
public |
Collapse Pango sublineages up to user defined parent lineages.
|
2024-08-29 |
|
sepp
|
public |
SATe-enabled phylogenetic placement
|
2024-08-29 |
|
lsabgc
|
public |
lsaBGC-Pan - refined workflow for pan-BGC-omic evolutionary investigations.
|
2024-08-28 |
|
trimal
|
public |
A tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment
|
2024-08-28 |
|
ucsc-fatotwobit
|
public |
Convert DNA from fasta to 2bit format
|
2024-08-28 |
|
ucsc-bigwigsummary
|
public |
Extract summary information from a bigWig file.
|
2024-08-28 |
|
pygcap
|
public |
Python package for probe-based gene cluster finding in large microbial genome database.
|
2024-08-28 |
|
spoa
|
public |
SIMD partial order alignment tool/library
|
2024-08-28 |
|
meme
|
public |
Motif-based sequence analysis tools.
|
2024-08-28 |
|
methbat
|
public |
A battery of methylation tools for PacBio HiFi reads
|
2024-08-28 |
|
ucsc-catdir
|
public |
concatenate files in directory to stdout.
|
2024-08-27 |
|
ucsc-hgloadoutjoined
|
public |
load new style (2014) RepeatMasker .out files into database
|
2024-08-27 |
|
ucsc-bedremoveoverlap
|
public |
Remove overlapping records from a (sorted) bed file. Gets rid of
|
2024-08-27 |
|
ucsc-maffetch
|
public |
get overlapping records from an MAF using an index table
|
2024-08-27 |
|
ucsc-gff3togenepred
|
public |
convert a GFF3 file to a genePred file
|
2024-08-27 |
|
ucsc-pslsort
|
public |
Merge and sort psCluster .psl output files
|
2024-08-27 |
|
ucsc-bedrestricttopositions
|
public |
Filter bed file, restricting to only ones that match chrom/start/ends specified in restrict.bed file.
|
2024-08-27 |
|
ucsc-netsplit
|
public |
Split a genome net file into chromosome net files
|
2024-08-27 |
|
ucsc-chainsort
|
public |
Sort chains. By default sorts by score.
|
2024-08-27 |
|
ucsc-bigwigtobedgraph
|
public |
Convert from bigWig to bedGraph format.
|
2024-08-27 |
|
ucsc-genepredtogtf
|
public |
Convert genePred table or file to gtf.
|
2024-08-27 |
|
ucsc-pslcheck
|
public |
validate PSL files
|
2024-08-27 |
|
ucsc-dbsnoop
|
public |
Produce an overview of a database.
|
2024-08-27 |
|
ucsc-paranodestatus
|
public |
version 12.18
|
2024-08-27 |
|
ucsc-hgloadout
|
public |
load RepeatMasker .out files into database
|
2024-08-27 |
