bioconda / packages

Package Name Access Summary Updated
tracy public Basecalling, alignment, deconvolution and variant calling for Sanger chromatogram trace files 2019-02-19
pysradb public Python package for interacting with SRAdb and downloading datasets from SRA 2019-02-19
scnic public SCNIC: Sparse Cooccurence Network Investigation for Compositional data 2019-02-18
digestiflow-cli public Command line client for Digestiflow. 2019-02-18
bioconda-utils public Utilities for building and managing bioconda recipes. 2019-02-18
deeptools public A set of user-friendly tools for normalization and visualzation of deep-sequencing data 2019-02-18
simple_sv_annotation public Simplify snpEff annotations for interesting cases 2019-02-18
anvio public An interactive analysis and visualization platform for omics data 2019-02-18
anvio-minimal public An interactive analysis and visualization platform for omics data 2019-02-18
scanpy-scripts public A set of wrappers for individual components of the scanpy package. Functions in python packages are hard to call when building workflows outside of python, so this package adds a set of simple wrappers with robust argument parsing. 2019-02-18
ensembl-vep public The VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions. 2019-02-18
scanpy public Single-Cell Analysis in Python. Scales to >1M cells. 2019-02-16
anndata public An annotated data matrix. 2019-02-16
mykrobe public Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis. 2019-02-16
kaiju public Fast and sensitive taxonomic classification for metagenomics 2019-02-16
whatshap public phase genomic variants using DNA sequencing reads (haplotype assembly) 2019-02-16
sina public Reference based multiple sequence alignment 2019-02-16
rapid public Read Alignment, Analysis, and Differential Pipeline (RAPID) is a set of tools for the alignment, and analysis of genomic regions with small RNA clusters derived from small RNA sequencing data. 2019-02-16
moff public moFF is an OS independent tool designed to extract apex MS1 intensity using a set of identified MS2 peptides. 2019-02-15
umis public Tools for processing UMI RNA-tag data 2019-02-15
jbrowse public The JBrowse Genome Browser 2019-02-15
kipoi_veff public kipoi_veff: variant effect prediction plugin for Kipoi 2019-02-15
snakemake public Snakemake is a workflow management system that aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment, together with a clean and modern specification language in python style. Snakemake workflows are essentially Python scripts extended by declarative code to define rules. Rules describe how to create output files from input files. This package provides the full installation including all optional dependencies. 2019-02-15
gromacs public GROMACS is a versatile package to perform molecular dynamics. 2019-02-15
snakemake-minimal public Snakemake is a workflow management system that aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment, together with a clean and modern specification language in python style. Snakemake workflows are essentially Python scripts extended by declarative code to define rules. Rules describe how to create output files from input files. This package provides the core snakemake functionility. For features like reports and remote files, check out the snakemake package which provides all optional dependencies. 2019-02-15
maxbin2 public MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm. 2019-02-15
infernal public Infernal ("INFERence of RNA ALignment") is for searching DNA sequence databases for RNA structure and sequence similarities. 2019-02-15
sniffles public Sniffles is a structural variation caller using third generation sequencing (PacBio or Oxford Nanopore) 2019-02-15
pbccs public pbccs - Generate Accurate Consensus Sequences from a Single SMRTbell 2019-02-15
stream public STREAM Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data http://stream.pinellolab.org 2019-02-15
staramr public Scan genome contigs against the ResFinder and PointFinder databases 2019-02-15
deeptoolsintervals public A python module creating/accessing GTF-based interval trees with associated meta-data 2019-02-14
arb-bio-devel public ARB 6 Sequence Analysis Suite 2019-02-14
arb-bio public ARB 6 Sequence Analysis Suite 2019-02-14
arb-bio-tools public ARB 6 Sequence Analysis Suite 2019-02-14
libarbdb public ARB 6 Sequence Analysis Suite 2019-02-14
fpa public Filter Pairwise Alignment filter long read mapping information to save disk space 2019-02-14
r-basejump public Base functions for bioinformatics and R package development. 2019-02-14
ucsc-cell-browser public A browser for single-cell data, main site at http://cells.ucsc.edu 2019-02-13
biobb_model public Biobb_model is the Biobb module collection to check and model 3d structures, create mutations or reconstruct missing atoms. 2019-02-13
slamdunk public SlamDunk is a novel, fully automated software tool for automated, robust, scalable and reproducible SLAMseq data analysis. 2019-02-13
trumicount public For NGS experiments using unique molecular identifiers (UMIs), molecules that are lost entirely during sequencing cause under- estimation of the molecule count, and amplification artifacts like PCR chimeras cause over-estimation. TRUmiCount corrects UMI data for both types of errors, thus improving the accuracy of measured molecule counts considerably. 2019-02-13
python-omero public Client library offering helper methods to access an OMERO server. 2019-02-13
umi_tools public Tools for dealing with Unique Molecular Identifiers (UMIs) / Random Molecular Tags (RMTs) 2019-02-13
ucsc-gtftogenepred public convert a GTF file to a genePred 2019-02-13
ucsc-genepredtogtf public Convert genePred table or file to gtf. 2019-02-13
ucsc-genepredtobed public Convert from genePred to bed format. Does not yet handle genePredExt 2019-02-13
ucsc-fatotwobit public Convert DNA from fasta to 2bit format 2019-02-13
ucsc-bedtogenepred public convert bed format files to genePred format 2019-02-13
hisat2 public graph-based alignment of next generation sequencing reads to a population of genomes 2019-02-13
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