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100daysofaws

alarmpi

This is the latest version of the alarm clock for Raspberry Pi project.

altair

Declarative statistical visualization library for Python

analysis-wdls

Early stages of converting genome/analysis-workflows from CWL to WDL

analysis-workflows

Open workflow definitions for genomic analysis from MGI at WUSM.

annotables

R data package for annotating/converting Gene IDs

apalyzer

APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is comparison of sequencing reads in regions demarcated by high quality polyadenylation sites (PASs) annotated in the PolyA_DB database (http://exon.njms.rutgers.edu/polya_db/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2018

ase_bamreadcount

Allele Specific Expression using bam-readcount

awesome-bioinformatics-benchmarks

A curated list of bioinformatics bench-marking papers and resources.

awesome-python

A curated list of awesome Python frameworks, libraries, software and resources

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bam-readcount

Count bases in BAM/CRAM files

bamclipper

Remove primer sequence from BAM alignments by soft-clipping

barcrawler

easy to use QC package for 10X genomics barcoded reads

bash-oneliner

Bash Oneliner learning station. This blog will focus on bash commands for parsing biological data, which are tsv files(tab-separated values); some of the commands are for Ubuntu system maintaining. I apologize that there won't be any citation of the code, but they are probably from dear Google and Stackoverflow. Not all the code here are oneliner (if the ';' counts..). English and bash are not my first language, so... correct me anytime, tks!!

bayestestr

:ghost: Utilities for analyzing Bayesian models and posterior distributions

bcbb

Incubator for useful bioinformatics code, primarily in Python and R

bcl2fastq

bd_python

bigbookofr

The biggest collection of R books (and maybe later some other resources too)

biocode

Bioinformatics code libraries and scripts

bioconductoroncontainers

Workshop for Bioc2019 for using Bioconductor on containers

bioinf-python

Python for Bioinformatics

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

bioinformatics-1

Code snippets

bioinformatics-algorithms-coursera

Solutions to Programming Assignments for Bioinformatics Algorithms (Part 1) on Coursera.org

bioinformatics-hacks

A collection of Python scripts I use for random bioinformatics-related tasks.

bioscripts

scripts I am using on a daily basis

biotools

A list of useful bioinformatics resources