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bioconda / packages

Package Name Access Summary Updated
sequencetools public A tool (pileupCaller) for processing ancient DNA sequencing data 2025-01-30
perl-libwww-perl public The World-Wide Web library for Perl. 2025-01-29
perl-lwp-simple public simple procedural interface to LWP 2025-01-29
bioconda-utils public Utilities for building and managing bioconda recipes. 2025-01-29
maxbin2 public MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm. 2025-01-29
flashlfq public Ultrafast label-free quantification algorithm for mass-spectrometry proteomics. 2025-01-29
perl-html-parser public HTML parser class 2025-01-29
bioconductor-biocgenerics public S4 generic functions used in Bioconductor 2025-01-29
bioconductor-copynumber public Segmentation of single- and multi-track copy number data by penalized least squares regression. 2025-01-29
bioconductor-genomeinfodb public Utilities for manipulating chromosome names, including modifying them to follow a particular naming style 2025-01-29
bioconductor-iranges public Foundation of integer range manipulation in Bioconductor 2025-01-29
bioconductor-xvector public Foundation of external vector representation and manipulation in Bioconductor 2025-01-29
bioconductor-s4vectors public Foundation of vector-like and list-like containers in Bioconductor 2025-01-29
bioconductor-zlibbioc public An R packaged zlib-1.2.5 2025-01-29
pairix public 2D indexing on bgzipped text files of paired genomic coordinates 2025-01-28
egglib public Evolutionary Genetics and Genomics Library. EggLib is a C++/Python library and program package for evolutionary genetics and genomics. Main features are sequence data management, sequence polymorphism analysis, and coalescent simulations. EggLib is a flexible Python module with a performant underlying C++ library and allows fast and intuitive development of Python programs and scripts. 2025-01-28
pybigwig public A python extension written in C for quick access to bigWig files. 2025-01-28
nf-core public Python package with helper tools for the nf-core community. 2025-01-27
poppunk public PopPUNK (POPulation Partitioning Using Nucleotide Kmers) 2025-01-27
unicycler public Hybrid assembly pipeline for bacterial genomes 2025-01-27
miniasm public Ultrafast de novo assembly for long noisy reads (though having no consensus step) 2025-01-27
perl-io-interactive public Utilities for interactive I/O 2025-01-27
py2bit public A package for accessing 2bit files using lib2bit 2025-01-26
solvebio public The SolveBio Python client 2025-01-24
gdc-client public GDC Data Transfer Tool 2025-01-24
cat public CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) 2025-01-24
rnastructure public RNAstructure is a complete package for RNA and DNA secondary structure prediction and analysis. It includes algorithms for secondary structure prediction, including facility to predict base pairing probabilities. It also can be used to predict bimolecular structures and can predict the equilibrium binding affinity of an oligonucleotide to a structured RNA target. This is useful for siRNA design. It can also predict secondary structures common to two, unaligned sequences, which is much more accurate than single sequence secondary structure prediction. Finally, RNAstructure can take a number of different types of experiment mapping data to constrain or restrain structure prediction. These include chemical mapping, enzymatic mapping, NMR, and SHAPE data. 2025-01-23
parsnp public Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection. 2025-01-23
openms public OpenMS is an open-source software C++ library for LC-MS data management and analyses 2025-01-23
spaln public Map and align a set of cDNA/EST or protein sequences onto a genome 2025-01-23
khmer public khmer k-mer counting library 2025-01-23
itsxpress public ITSxpress: Software to rapidly trim the Internally Transcribed Spacer (ITS) region from FASTQ files. 2025-01-22
deeptoolsintervals public A python module creating/accessing GTF-based interval trees with associated meta-data 2025-01-22
perl-socket public networking constants and support functions 2025-01-22
whatshap public Phase genomic variants using DNA sequencing reads (haplotype assembly). 2025-01-22
iced public The python module iced implements the ICE normalization of hic data. 2025-01-22
kleborate public Kleborate: a tool for typing and screening pathogen genome assemblies 2025-01-21
sra-tools public The SRA Toolkit and SDK from NCBI. 2025-01-21
deeptools public A set of user-friendly tools for normalization and visualzation of deep-sequencing data 2025-01-20
mmseqs2 public MMseqs2: ultra fast and sensitive sequence search and clustering suite 2025-01-18
libbigwig public A C library for handling bigWig files 2025-01-17
bioconductor-biostrings public Efficient manipulation of biological strings 2025-01-17
htstream public HTStream is a quality control and processing pipeline for High Throughput Sequencing data. The difference between HTStream and other tools is that HTStream uses a tab delimited fastq format that allows for streaming from application to application. This streaming creates some awesome efficiencies when processing HTS data and makes it fully interoperable with other standard Linux tools. 2025-01-16
sourmash public Compute and compare MinHash signatures for DNA data sets. 2025-01-15
delly public Structural variant discovery by integrated paired-end and split-read analysis 2025-01-15
homer public Software for motif discovery and next generation sequencing analysis 2025-01-15
muscle public Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences 2025-01-14
pasta public An implementation of the PASTA (Practical Alignment using Sate and TrAnsitivity) algorithm 2025-01-14
perl-bio-phylo public An object-oriented Perl toolkit for analyzing and manipulating phyloinformatic data. 2025-01-14
abricate public Mass screening of contigs for antibiotic resistance genes 2025-01-14

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