bioconda / packages

Package Name Access Summary Updated
cnv_facets public Detect somatic copy number variants (CNV) in tumour-normal samples using next generation sequencing data 2019-04-19
perl-compress-raw-zlib public Basic utilities for writing tests. 2019-04-19
perl-math-random public Random Number Generators 2019-04-19
perl-time-hires public High resolution alarm, sleep, gettimeofday, interval timers 2019-04-19
perl-perlio-gzip public PerlIO interface to gzip/gunzip 2019-04-19
perl-inline-c public C Language Support for Inline 2019-04-19
perl-pod-checker public No Summary 2019-04-19
metaquantome public Quantitative metaproteomics analysis of taxonomy and function. 2019-04-19
perl-hpc-runner-command-plugin-logger-sqlite public No Summary 2019-04-19
perl-hpc-runner-command public Create composable bioinformatics hpc analyses. 2019-04-19
perl-text-ansitable public No Summary 2019-04-19
ruffus public Light-weight Python Computational Pipeline Management 2019-04-19
group_humann2_uniref_abundances_to_go public Group abundances of UniRef50 gene families obtained with HUMAnN2 to Gene Ontology (GO) slim terms with relative abundances 2019-04-19
perl-version-next public No Summary 2019-04-18
perl-moosex-app public Write user-friendly command line apps with even less suffering 2019-04-18
perl-file-homedir public Find your home and other directories on any platform 2019-04-18
perl-pod-elemental public work with nestable Pod elements 2019-04-18
perl-mixin-linewise public No Summary 2019-04-18
picard public Java tools for working with NGS data in the BAM format 2019-04-18
digestiflow-cli public Command line client for Digestiflow. 2019-04-18
hyphy public HyPhy (Hypothesis Testing using Phylogenies) is an open-source software package for the analysis of genetic sequences (in particular the inference of natural selection) using techniques in phylogenetics, molecular evolution, and machine learning. 2019-04-18
r-stitch public STITCH - Sequencing To Imputation Through Constructing Haplotypes 2019-04-18
bioconductor-dupradar public Duplication rate quality control for RNA-Seq datasets. 2019-04-17
perl-html-parser public HTML parser class 2019-04-17
perl-pathtools public Tools for working with directory and file names 2019-04-17
parallel-fastq-dump public parallel fastq-dump wrapper 2019-04-17
nextflow public A DSL for data-driven computational pipelines http://nextflow.io 2019-04-17
bismark public Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step. The output can be easily imported into a genome viewer, such as SeqMonk, and enables a researcher to analyse the methylation levels of their samples straight away. 2019-04-17
fastp public A FASTQ preprocessor with full features (QC/adapters/trimming/filtering/splitting...) 2019-04-17
fwdpy11 public Forward-time population genetic simulation in Python. 2019-04-17
r-seurat public A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Butler A and Satija R (2017) <doi:10.1101/164889> for more details. 2019-04-16
damageprofiler public A Java based tool to determine damage patterns on ancient DNA as a replacement for mapDamage 2019-04-16
snp-pileup public Compute SNP pileup at reference positions in one or more input bam files. Output is ready for the R package facets 2019-04-16
openmg public Exhaustive generation of chemical structures 2019-04-16
rmats public MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data. 2019-04-16
gffcompare public GffCompare by Geo Pertea 2019-04-16
pathwaymatcher public PathwayMatcher is a software tool writen in Java to search for pathways related to a list of proteins in Reactome. 2019-04-16
stamp public A graphical software package for analyzing taxonomic and functional profiles. 2019-04-15
transit public TRANSIT 2019-04-15
multiqc public Create aggregate bioinformatics analysis reports across many samples and tools 2019-04-15
gxformat2 public Galaxy Workflow Format 2 Descriptions 2019-04-14
scprep public Tools for loading and preprocessing biological matrices in Python. 2019-04-14
galaxy-lib public Subset of Galaxy (http://galaxyproject.org/) core code base designed to be used a library. 2019-04-14
bcbio-nextgen public Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis 2019-04-13
methyldackel public A (mostly) universal methylation extractor for BS-seq experiments. Formerly named PileOMeth. 2019-04-13
augustus public AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments. 2019-04-13
graphaligner public Sequence to graph aligner for long reads 2019-04-13
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. 2019-04-12
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. 2019-04-12
pairix public 2D indexing on bgzipped text files of paired genomic coordinates 2019-04-12
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