Forum: Crac: Funny And/Or Weird Names For Bioinformatics Tools
19
gravatar for Istvan Albert
4.4 years ago by
Istvan Albert ♦♦ 73k
University Park, USA
Istvan Albert ♦♦ 73k wrote:

The latest Article Alert from Genome Biology had a software tool that caught my attention

I started imagining headlines of the sorts: CRAC Leads to Breakthroughs

What other weird or funny names for tools/methodologies are out there?

By the way here is a suggestion for a good bioinformatics tool name: YOLO

Or even better YORO meaning You can Only Run it Once

humor forum bioinformatics • 6.4k views
ADD COMMENTlink modified 23 months ago by jonathan.seguin0 • written 4.4 years ago by Istvan Albert ♦♦ 73k
18

Homer drinks T-Coffee with new Tophat, shiny Cufflinks , a charming Bowtie and Tuxedo on, to BLAST some MUSCLE, when stressed, he detours to MethLAB for some CRAC!! :)

ADD REPLYlink modified 4.4 years ago • written 4.4 years ago by Sukhdeep Singh9.0k
3

... just to find himself waking up in JAIL the next mornig...

ADD REPLYlink modified 4.4 years ago • written 4.4 years ago by Michael Dondrup42k
4

...wishing he had sticked to BACCardI in that BAR+....

ADD REPLYlink modified 4.4 years ago • written 4.4 years ago by Michael Dondrup42k
4

Realizing not a SMART decision, now, drenched in dirt, thinking SOAP would help, or asking DAVID for his SuperFamily to pull some STRING else life will turn from a SoftBerry to a 3D JigSaw ....

ADD REPLYlink modified 4.4 years ago • written 4.4 years ago by Sukhdeep Singh9.0k
1

adding cummeRbund to what he is wearing!!

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by komal.rathi2.9k
4

It's not bioinformatics, but I'll never get over the fact that the Copper (Cu) Nanotubues (NT) paper got published without anyone googling the acronym once...

Source: http://pubs.rsc.org/en/content/articlepdf/2007/CC/B614147A

ADD REPLYlink written 4.4 years ago by Daniel3.4k

You could also check funny names for biological entities. Have you checked if your proteins http://www.ncbi.nlm.nih.gov/protein?cmd=&term=will+die+slowly&go=Go

ADD REPLYlink modified 4.4 years ago • written 4.4 years ago by Pawel Szczesny3.2k
21
gravatar for SES
4.4 years ago by
SES7.9k
Vancouver, BC
SES7.9k wrote:

One of the best I've seen is MethLAB. When combined with CRAC, you are guaranteed results.

ADD COMMENTlink written 4.4 years ago by SES7.9k

Have some freebayes while you're at it.

ADD REPLYlink written 2.9 years ago by Cliff Beall440
7
gravatar for Pierre Lindenbaum
4.4 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum96k wrote:

BioNOT is a searchable database of negated biomedical sentences.

ADD COMMENTlink written 4.4 years ago by Pierre Lindenbaum96k
1

Wow, this is maybe one of the most important biomedical text-mining applications (honestly)!

ADD REPLYlink written 4.4 years ago by Michael Dondrup42k
6
gravatar for BioApps
2.9 years ago by
BioApps680
Spain
BioApps680 wrote:

Can I enlist myself here with my software?

Kitten Dereplicator

The idea was given by Pierre Lindenbaum in this post: Kitten - A DNA Sequence Dereplicator & Cluster Viewer (GUI)

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by BioApps680
1

Vote for funny

ADD REPLYlink written 2.9 years ago by BioApps680

Vote for weird.

ADD REPLYlink written 2.9 years ago by BioApps680
5
gravatar for Jordan
4.4 years ago by
Jordan1.0k
Pittsburgh
Jordan1.0k wrote:

I liked the idea of Tuxedo (cufflinks, tophat and bowtie) in RNA Sequencing analysis. Makes one feel like a spy or something!!

ADD COMMENTlink written 4.4 years ago by Jordan1.0k
5
gravatar for Pierre Lindenbaum
2.9 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum96k wrote:

ARYANA: Aligning Reads by Yet Another Approach

Proceedings Milad Gholami1†, Aryan Arbabi2†, Ali Sharifi-Zarchi34, Hamidreza Chitsaz5 and Mehdi Sadeghi  BMC Bioinformatics 2014, 15(Suppl 9):S12 doi:10.1186/1471-2105-15-S9-S12
http://www.biomedcentral.com/1471-2105/15/S9/S12

via @kbradnam

You have to admire the honesty of the name! BMC Bioinformatics | ARYANA: Aligning Reads by Yet Another Approach http://t.co/7WqfKICbtY

— Keith Bradnam (@kbradnam) September 17, 2014

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by Pierre Lindenbaum96k
4
gravatar for Zev.Kronenberg
4.4 years ago by
United States
Zev.Kronenberg11k wrote:

SNVER MEME APE

And for the perverts:

BEDTOOLS

ADD COMMENTlink modified 4.4 years ago • written 4.4 years ago by Zev.Kronenberg11k
7

there was a situation where I was talking about bedtools and I happened to say bamtobed - someone in the first row started laughing, and it spread - I was puzzled at first eventually I got it

ADD REPLYlink written 4.4 years ago by Istvan Albert ♦♦ 73k
4
gravatar for Daniel
3.3 years ago by
Daniel3.4k
Cardiff University
Daniel3.4k wrote:

The recent addition of UPARSE to Robert Edgar's U* software (UCLUST, USEARCH, UCHIME) amuses me disproportionately to how funny it actually is.

(If you're missing the joke, this deconstruction may help: UP-ARSE)

ADD COMMENTlink written 3.3 years ago by Daniel3.4k
2
gravatar for Sukhdeep Singh
4.4 years ago by
Sukhdeep Singh9.0k
Netherlands
Sukhdeep Singh9.0k wrote:

Homer

MUSCLE

T-Coffee

BLAST

ADD COMMENTlink written 4.4 years ago by Sukhdeep Singh9.0k
2
gravatar for David Quigley
4.4 years ago by
David Quigley10k
San Francisco
David Quigley10k wrote:

These aren't purely bioinformatics methods, but they require considerable bioinformatics expertise:

ChIA-PET (See also this important related supporting material)

Hi-C (With related material on how to replicate the groundbreaking but controversial Ecto-Cooler method )

ADD COMMENTlink written 4.4 years ago by David Quigley10k
2
gravatar for Mary
4.4 years ago by
Mary11k
Boston MA area
Mary11k wrote:

I thought this was doomed: G-nome Surfer http://www.sciencedirect.com/science/article/pii/S1071581912000924

ADD COMMENTlink written 4.4 years ago by Mary11k

plus they propose a multi-touch interface - I don't even know what to say

ADD REPLYlink written 4.4 years ago by Istvan Albert ♦♦ 73k
2
gravatar for Fred
4.4 years ago by
Fred650
Paris, France
Fred650 wrote:

A few funny bioinformatics tool names :

SARUMAN : Semiglobal Alignment of short Reads Using CUDA and NeedleMAN-Wunsch http://bit.ly/e0tQry

NORMA-Gene: A simple and robust method for qPCR normalization based on target gene data http://bit.ly/iS3lLC

Sniper: improved SNP discovery by multiply mapping deep sequenced reads http://bit.ly/m5tSZw

LinkinPath: From Sequence to Interconnected Pathway http://bit.ly/iqDepz

ADD COMMENTlink written 4.4 years ago by Fred650
2
gravatar for Istvan Albert
3.3 years ago by
Istvan Albert ♦♦ 73k
University Park, USA
Istvan Albert ♦♦ 73k wrote:

I keep misreading and recalling this as INSANE

NGSANE: a lightweight production informatics framework for high-throughput data analysis, Bioinformatics 2014

 

 

ADD COMMENTlink written 3.3 years ago by Istvan Albert ♦♦ 73k
1

GAG - The Genome Annotation Generator

http://genomeannotation.github.io/GAG/

ADD REPLYlink written 2.9 years ago by Istvan Albert ♦♦ 73k
2
gravatar for komal.rathi
2.9 years ago by
komal.rathi2.9k
Children's Hospital of Philadelphia, Philadelphia, PA
komal.rathi2.9k wrote:

YASARA (Yet Another Scientific Artificial Reality Application) 

ADD COMMENTlink written 2.9 years ago by komal.rathi2.9k

Ha! I just saw almost that today on twitter:

ADD REPLYlink written 2.9 years ago by Mary11k
2
gravatar for Devon Ryan
2.4 years ago by
Devon Ryan70k
Freiburg, Germany
Devon Ryan70k wrote:

The name will likely get changed at some point (I'm slowly putting together what will likely become "MethTools"), but I picked PileOMeth as a name to intentionally be somewhat funny. I like to picture Walter White when I type it...

ADD COMMENTlink written 2.4 years ago by Devon Ryan70k
1
gravatar for quentin.delettre
4.4 years ago by
France
quentin.delettre420 wrote:

Amber ?

ADD COMMENTlink written 4.4 years ago by quentin.delettre420
1
gravatar for Pawel Szczesny
4.4 years ago by
Pawel Szczesny3.2k
Poland
Pawel Szczesny3.2k wrote:

My favourite has been Project HOPE (try to google it ;) ).

Also, there are two JANEs: http://biosemantics.org/jane and http://jane.bioapps.biozentrum.uni-wuerzburg.de Although they were not published in the same journal.

ADD COMMENTlink written 4.4 years ago by Pawel Szczesny3.2k
1
gravatar for Brice Sarver
2.9 years ago by
Brice Sarver2.3k
United States
Brice Sarver2.3k wrote:

FUBAR, an improved method for detecting signatures of selection implemented within HyPhy.

http://mbe.oxfordjournals.org/content/early/2013/02/18/molbev.mst030.short

ADD COMMENTlink written 2.9 years ago by Brice Sarver2.3k
1
gravatar for rbagnall
2.9 years ago by
rbagnall1.1k
Australia
rbagnall1.1k wrote:

The CRAPome

a contaminant repository for affinity purification-mass spectrometry data.

http://www.ncbi.nlm.nih.gov/pubmed/23921808

ADD COMMENTlink written 2.9 years ago by rbagnall1.1k
1
gravatar for Garan
2.9 years ago by
Garan300
United Kingdom
Garan300 wrote:

Probably abit of a UK specific one (http://www.urbandictionary.com/define.php?term=baps) but;

Bayesian Analysis of Population Structure (BAPS)

http://www.helsinki.fi/bsg/software/BAPS/

But since this was often linked with Nomenclature of Territorial Units for Statistics (Nomenclature des unités territoriales statistiques aka NUTS)  presenting on the subject was a pain.

 

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by Garan300
2

here is another "wordplay" on pooled population: PoPoolation https://code.google.com/p/popoolation/

ADD REPLYlink modified 2.5 years ago • written 2.5 years ago by Istvan Albert ♦♦ 73k
0
gravatar for Cliff Beall
2.9 years ago by
Cliff Beall440
Ohio
Cliff Beall440 wrote:

I always thought Picard was a funny name. Were the authors Star Trek fans?

ADD COMMENTlink written 2.9 years ago by Cliff Beall440
0
gravatar for Biojl
2.9 years ago by
Biojl1.5k
Barcelona
Biojl1.5k wrote:

I named my tool PALO. Which in spanish mean wooden stick... and also when you feel lazy to do something in street language.

http://evolutionarygenomics.imim.es/josepl/codeigniter/index.php/pages/view/home

ADD COMMENTlink written 2.9 years ago by Biojl1.5k
0
gravatar for jonathan.seguin
23 months ago by
Canada
jonathan.seguin0 wrote:

Someone has been giving out awards to projects with silly accronyms.

http://www.acgt.me/blog?tag=jabba

ADD COMMENTlink written 23 months ago by jonathan.seguin0
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