Noah Hoffman (@nhoffman)
github

nhoffman

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  • Stars
    star
    312
  • Global Rank 86,263 (Top 3 %)
  • Followers 34
  • Following 10
  • Registered about 14 years ago
  • Most used languages
    Python
         65.2 %
    Emacs Lisp
         13.0 %
    Shell
         8.7 %
    R
         4.3 %
    TeX
         4.3 %
    HTML
         4.3 %

Top repositories

1

argparse-bash

Use python's argparse module in shell scripts
Shell
167
star
2

org-export

batch export of org-mode files from the command line
Emacs Lisp
64
star
3

bioscons

Extends the scons build tool for reproducible workflows in bioinformatics.
Python
17
star
4

.emacs.d

My emacs configuration
Emacs Lisp
16
star
5

alnvu

Reformat and condense multiple sequence alignments to highlight variability
Python
7
star
6

Seq

(abandoned) python utilities for manipulation of biological sequences
Python
7
star
7

swarmwrapper

Wraps swarm to perform pooled dereplication
Python
3
star
8

mkvenv

A wrapper for virtualenv, pip, and wheel
Python
3
star
9

rvenv

Install and manage R packages in a python virtualenv.
R
2
star
10

emacs-config

My emacs configuration, take 2
Emacs Lisp
2
star
11

barcodecop

Enforce barcode match stringency and read quality in demultiplexed MiSeq reads
Python
2
star
12

fastalite

Simplest possible fasta/fastq parser
Python
2
star
13

opiates

Automated QA for a clinical LC/MS urine opaites assay
Python
2
star
14

borborygmi

A blog built using emacs org-mode and Pelican
HTML
2
star
15

ya16sdb

A curated subset of 16S rRNA sequences from NCBI
Python
2
star
16

pymenu

Provides a simple, interactive text-based user interface
Python
2
star
17

unittools

Lightweight utility for running python unit tests
Python
2
star
18

uwgroups

Python library and CLI for UW Groups API
Python
1
star
19

16s-capture

Pipleine code for "Sensitive identification of bacterial DNA in clinical specimens by broad range 16S rRNA enrichment"
Python
1
star
20

mypy

Configuration for my python environment
Shell
1
star
21

dada2-nf

A Nextflow pipeline for processing 16S rRNA sequences using dada2
Python
1
star
22

ungapatchka

A python project template with bells and whistles
Python
1
star
23

deduplicate

Remove duplicates from collections of biological sequences
1
star
24

lab-software-whitepaper

A whitepaper describing software development best practices for the clinical laboratory
TeX
1
star