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agfusion

Python package to annotate and visualize gene fusions.

allelespecific

pipeline for allele-specific mapping of short reads

amigo

AmiGO is the public interface for the Gene Ontology.

annocript

Annocript is a pipeline for the annotation of de-novo generated transcriptomes. It executes BLAST analysis with UniProt, NCBI Conserved Domain Database and Nucleotide divisions, Gene Ontology, UniPathways and the Enzyme Commission. It gives information about the longest ORF (using DNA2PEP) and non-coding potential of the sequences (using Portrait). A final heuristic makes Annocript able to identify putative long non-coding RNAs among your transcripts.

annotate-and-filter

annotatiing and filtering variants

annotation-pipeline

anntools

Modified version of anntools for MPCS cloud computing class

ap11_samifier

Mascot (peptide) search results converted into SAM format

apollo

Genome annotation editor with a Java Server backend and a Javascript client that runs in a web browser as a JBrowse plugin.

apostl

APOSTL is an interactive affinity proteomics analysis software developed to reformat affinity proteomics data (both spectral counting and MS1) for input into the SAINTexpress statistical package and to visualize the output(s).

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2017

appliedgenomics

JHU EN.600.649: Computational Genomics: Applied Comparative Genomics

appris

Annotating principal splice isoforms

appstatbio

Applied Statistics for High-Throughput Biology

arcashla

Fast and accurate in silico inference of HLA genotypes from RNA-seq

asarp

ASARP: the pipeline for accurate identification of allele-specific alternative mRNA processing

asms2017

assemble_var

A pipeline for the assembly of VAR genes from transcriptome data

assemblytics

Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.

asthma

RNA-seq quantifications: gene expression responses to human rhinovirus infection for 6 asthmatic and 6 non-asthmatic donors (SRP046226)

atac_workshop

ATAC_seq Workshop

atc

This package provides the Anatomical Therapeutical Chemical (ATC) Classification data from WHOCC and implements functions that facilitate working with these.

athena_meta

read cloud assembler

atlas_gsa

Gene set analysis based on fisher exact test

atreyu

Ion mobility mass spectrometry data viewer and extractor, targeted toward PNNL's UIMF files

augustus

AUGUSTUS v3.2.1 for installation on Mac OS X

autoftp

An automated system for creating and managing temporary FTP sites

awesome

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

awesome-bio-datasets

awesome-bio-datasets

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.