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See you at Shonan Meeting 167 — Formalizing Biomedical Visualization


language + fiction

Dark Matter of the English Language—the unwords

Words are easy, like the wind;
Faithful friends are hard to find.
—William Shakespeare

unfeelings

Somedays it's hard to know what you feel.

Maybe it's because you don't have a word for it yet.

Did that flight leave you quacy because of the kadful food? Next time, you should be more infulic and insist on an upgrade.

I like my friends both kessive and wanric, which I find to provide a nice balance. I don't generally like those who are sadry or tamty.

If this makes you weable, keep it to yourself.

Below are the alphabetically first 5–12 letter single-word unanimals for each letter. In some cases, no names of a given length were generated for a given letter.

—5—
aabye
aacec
baagd
bacac
caane
caary
daagy
daany
eabed
eable
faary
faaty
gaaly
gaany
haady
haced
iaded
iaden
jahed
jamid
kebed
kecig
laasy
labed
machy
maded
naavy
nabul
oated
obeed
pabed
pabey
qaaly
qafed
rabus
racin
saady
saany
taamy
tably
uadec
uaned
vaaty
vable
waady
waany
xated
xeany
yaced
yagre
zalil
zfust
—6—
aacang
aadare
bacint
badeny
caanoy
caaove
dabred
dacric
eaapte
eacomt
faaded
faalul
gaajly
gaaole
hacied
hadful
iadeve
iafhed
jadent
jadicy
kadful
kagful
laafil
laared
maaded
macfil
nabfle
nabime
oabenn
oadant
paaced
pacful
qacant
qacent
raadry
raatyd
saaded
saated
taaikl
tadeny
uacape
uadess
vaadyd
vaased
waapmy
wacful
xashed
xefric
yaefus
yaptec
zadful
zorted
—7—
aacinat
aaciwed
baadive
baatain
caalave
caamful
dabrned
dacefun
eaagate
eabnsed
faarirt
faathul
gacaved
gacgest
habived
haceful
iagerad
iamimed
jaative
jaceaul
kaiding
karefol
laatful
laching
maacful
maasful
naanhed
nabefus
oaadein
oablagy
paative
pabrecy
qaading
qabilgy
raading
raaehgy
saaempe
saaflen
taateng
tabsang
uabrant
uafcans
vaakive
vaasted
waadful
waaekly
xeiricy
xerting
yanaced
yannant
ziclatl
zipfred
—8—
aablined
aacfiled
bacigled
badessed
caabefol
caadepus
daatated
daceased
eaabided
eabllive
faaciwty
faanhyen
gaatited
gadeding
habateng
hacantic
iabliged
iabumled
jabonted
jacerous
karkefus
katiomat
labpinty
lacioest
maaniked
mabrathy
naaqated
nabheful
oablieed
oacemhed
paatefel
pachapte
qaaloved
qaeigued
rabenooy
rablnred
saafiled
saagluse
tacdeful
tacerate
uabhliac
uadenabe
vaadeful
vaatious
waathful
waberous
xeadliun
xeenated
yagdaned
yaolapte
zafrebus
zleefled
—9—
aacressed
aadeiaged
baaderaus
babefaled
caacitave
caafaligy
dacfirive
daenimast
eaadimate
eablagied
faadented
faarulhed
gacsitive
gagpalled
habuinate
hacenglic
iabuttant
iadelaced
jaadevieg
jacrucsid
kacergiag
kelrerous
laasivain
lachdysmy
mabuilive
macelomed
nabfiated
nabiovain
oablasted
oablatled
paacratky
paaikline
qaterated
qeatioped
rabomated
racastaon
sacedable
sacgented
taayhlive
tabelious
uabussing
uadenated
vaalenabe
vaashious
waadoemat
wabenated
xilretate
xiserompe
yamrictun
yamurhing
zlevenist
zonansicy
—10—
aachinated
aacrlacted
babralkant
baerkanped
caabiohant
caapenious
dacmulting
dagrutased
eacadageed
eadgitated
faagyerave
facimfelit
gaeomasine
gamheluted
hacopaglic
hadgensted
iaberanted
iacapoaged
jafapified
jamhelable
kameracive
karionaled
lachulated
lacisingfe
machklaved
madncgreen
nachinamed
nackeluted
oablaghang
oadamative
padhinated
padhuivien
qafeleased
qauolivive
raanttuled
rachimhive
sabplegted
sacitusiol
tacfuleked
tacpuented
uacricited
uafeitomed
vacticaled
vactinated
wacherlaty
wacinpefol
xantosored
xeangerted
yanilisive
yellahaged
zhiwufolad
zomiunable
—11—
aadiricated
aadofaagave
baminathais
banaterible
caamilavive
cabmiusated
damimatited
danklusicom
eadhiecated
eapriuhated
faatigomate
facantefuon
gaanhwelady
gadateroped
hacapigefel
hacngomrens
iadegeasiel
iafolorable
jargionafil
jerhuvessed
katterative
keranhiving
labwefusant
lacingresen
mabmantkrey
maciraleful
nabtowinned
nactupivied
oabemptaced
oanhissenac
padiwabtent
paexhufiond
qeeferenged
qeesetaeste
raadivisged
racfistaled
saasterheve
sabesatired
taesaglenhe
tamgurtined
uafurentful
uaoraverene
vacerslaons
vacimartatt
waadrwfaced
wacgertions
xingfolsent
yansictivac
yericishing
zosperusted
—12—
aafewserable
abdepeastiad
banokrariled
basigousated
caaperousais
caarimiasate
damismainabl
daninpicided
eaisderiured
eampaptitive
faadolenated
faadyrerosed
garmristeful
geajrefobled
hacnimisated
hadcomtanful
ianasioraled
ianhistecite
jadhitiraled
joicawiveful
kanclinneful
kintimageful
laemkovapole
lalerblessed
madenstetint
maichapfiled
naberitenhed
nactimivital
oafiwhililed
obeigonhawed
paerhomerate
paevimionape
qaoishaustus
qrecsipinted
racigatergec
ragrionative
saanhionable
sacgrocelous
taapmincoary
taforetisteg
ubforsiolate
ubnaterative
vaborlarxfol
vacupatenous
wacforstrove
wamtechevons
xursiwolated
yanthrlevous
yastituflesd

Here are all some lists with common suffixes

*acy abmacy baplacy clacy eghacy feacy geacy henacy iceacy jhacy leacy meacy ncacy ornacy peacy quacy reacy somacy taracy unpncacy veacy weacy

*aed abmenaed baribraed calyifaed deidonaed eeraed filicaed gearaed henisifaed icifaed jrabyaed lafaed meciupaed nasibaed odaed pevibaed ralaed sadyraed tarlifaed uduraed valaed warpuifaed yisivaed

*ant aadedenant babralkant caabiohant dalhant eaxant facagrant galhant hamtlihant iabuttant jepulant kesretant lanant macnant nactant oabtant pairant qacant ranntant sabsant tanjerant uabrant vagkant wasgimant yannant zontoghant

*anted aagranted cadanted deanted eadhanted fatanted hintanted iaberanted leanted manted nanted ocranted partanted recinanted samtanted tachanted unhanted vanted wisanted yononanted

*any abany brany ceany daany ecmeraany foany gaany heany iodany krany lorany memany nmany orcany puabrany reany saany tiany umamany veany waany xeany yrany

*ate aadiwenate bodenate cabriocate damtate eaadimate faesiosate ganaonate habuinate iasate kocaterate latlerate mapicuate naiclenate oagrenate paciciate qrate rarhenate sabnate tacerate uaoonate vasferate wacteruate xelate yinanate

*ated aachinated baiated caated daatated eaderated facated gaeated haoiated iacmatated jeated keinerated lachulated maminated naaqated oalforated padhinated qated rabomated saated taidated uadenated vactinated wabenated xated yedeated

*ble aasable banible caceable damerable eable fagilable garable hafelible ibepapible jamhelable kiballible lable malable naenable oarhawable pable qafable raconable sablable tacsble uatharible vablable wacerable zomiunable

*ed aablined babefaled caagimed daatated eaabided faaded gaared habived iaberanted jabonted karionaled laared maaded naanhed oablasted paaced qaaloved raanttuled saaded tacfuleked uacricited vaased waanked xantosored yaced zimed

*ful aanful badeful caamful dadhful eacreful faapsful gacful haceful iatful jadeful kadful laatful maacful nabheful oanelful pacful qaitful raasful sabmeful tacdeful uasanful vaadeful waadful yenteful zadful

*gy abeegy bengy caafaligy daagy eubagy fantrbangy gengy halkagy inalgy jangy larpurgy mancracgy ncangy oablagy pagigy qabilgy raaehgy sadhargy tarpiwekgy ulergy vactongy wacikgy

*hed abmonhed bailhed caihed damurhed eafliched faarulhed galhed halowhed iafhed jahed kroufhed lemashed macithed naanhed oacemhed pached qeihed ralerhed sached tamhed ubmarhed vacihed wanished xashed yisathed

*ic aanomic bestic cabpulic dacric eafmic faatic galfic hacantic iavicatic jeoloouaic kapfic lacic maastic nameic oamaspic panatic qlatic ragburic saavicic talic uamericic vakic wacic xefric yassic

*ied aasivied banipatied cabrafied daomipied eablagied feafied gapatgied hacied iasirfied jafapified kolpiried lelrified mandumried napied obentified pagied qoied radied sabied taied udracied veatofied walied yasrified

*ive aastessive baadive caavive dacfirive eabllive fafresvive gacsitive hacfive iasive jaative kameracive lactive mabuilive nadvosive oadamative paative qasative racensive saanive taayhlive uafunitive vaakive wadotive xipilivive yanilisive zonixive

*lic acfulic borilic cabpulic deseelic enblic ferlic gearlic hacenglic infulic jilolic lecablic macablic nelalic ocpalrlic pealic qllic rastilic sanmacelic talic ulnataclic valic wartipilic

*ous abfsious banious caapenious dahilious ecdiadaous facious ganerous hacious iarepsious jacerous kelrerous laiwhacous madious nacelous oaperous pactious qarerous ralous saarous tabelious uagensious vaashious waberous xoodous yasious zowerlrous

*ric abmaric camric dacric ecjaaric faeric gesteric hararic icoeric juric leric mameric necric oncaric paric qoric ragburic sadeuric talric unisteric varic wanric xefric

*ry afpomery bikykury caary danery eipiry faary gaary hacry icary jeary kovary lantry magery naiwory obsery paegry qaulary raadry sadry tacuory uanabry vacalry waary xeary yincalry

*ty ablanty bamty cagnty dastimty eadnty faaciwty gakaty harty ilnpatty jerenty kagity labpinty maghenty nanty oblenty paduevaty qearty racternty sacty tamtonty uanaty vaaty wacherlaty xinty yolety zonturty

VIEW ALL

news + thoughts

Using Circos in Galaxy Australia Workshop

Thu 20-02-2020

A workshop in using the Circos Galaxy wrapper by Rasche and Hiltemann. Event organized by Australian Biocommons.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Using Circos in Galaxy Australia workshop. (zoom)

Download workshop slides.

Galaxy wrapper training materials, Saskia Hiltemann, Helena Rasche, 2020 Visualisation with Circos (Galaxy Training Materials).

Essence of Data Visualization in Bioinformatics Webinar

Thu 20-02-2020

My webinar on fundamental concepts in data visualization and visual communication of scientific data and concepts. Event organized by Australian Biocommons.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Essence of Data Visualization in Bioinformatics webinar. (zoom)

Download webinar slides.

Markov models — training and evaluation of hidden Markov models

Thu 20-02-2020

With one eye you are looking at the outside world, while with the other you are looking within yourself.
—Amedeo Modigliani

Following up with our Markov Chain column and Hidden Markov model column, this month we look at how Markov models are trained using the example of biased coin.

We introduce the concepts of forward and backward probabilities and explicitly show how they are calculated in the training process using the Baum-Welch algorithm. We also discuss the value of ensemble models and the use of pseudocounts for cases where rare observations are expected but not necessarily seen.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Nature Methods Points of Significance column: Markov models — training and evaluation of hidden Markov models. (read)

Grewal, J., Krzywinski, M. & Altman, N. (2019) Points of significance: Markov models — training and evaluation of hidden Markov models. Nature Methods 17:121–122.

Background reading

Altman, N. & Krzywinski, M. (2019) Points of significance: Hidden Markov models. Nature Methods 16:795–796.

Altman, N. & Krzywinski, M. (2019) Points of significance: Markov Chains. Nature Methods 16:663–664.

Genome Sciences Center 20th Anniversary Clothing, Music, Drinks and Art

Tue 28-01-2020

Science. Timeliness. Respect.

Read about the design of the clothing, music, drinks and art for the Genome Sciences Center 20th Anniversary Celebration, held on 15 November 2019.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Luke and Mayia wearing limited edition volunteer t-shirts. The pattern reproduces the human genome with chromosomes as spirals. (zoom)

As part of the celebration and with the help of our engineering team, we framed 48 flow cells from the lab.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Precisely engineered frame mounts of flow cells used to sequence genomes in our laboratory. (zoom)

Each flow cell was accompanied by an interpretive plaque explaining the technology behind the flow cell and the sample information and sequence content.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
The plaque at the back of one of the framed Illumina flow cell. This one has sequence from a patient's lymph node diagnosed with Burkitt's lymphoma. (zoom)

Scientific data visualization: Aesthetic for diagrammatic clarity

Mon 13-01-2020

The scientific process works because all its output is empirically constrained.

My chapter from The Aesthetics of Scientific Data Representation, More than Pretty Pictures, in which I discuss the principles of data visualization and connect them to the concept of "quality" introduced by Robert Pirsig in Zen and the Art of Motorcycle Maintenance.

Yearning for the Infinite — Aleph 2

Mon 18-11-2019

Discover Cantor's transfinite numbers through my music video for the Aleph 2 track of Max Cooper's Yearning for the Infinite (album page, event page).

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Yearning for the Infinite, Max Cooper at the Barbican Hall, London. Track Aleph 2. Video by Martin Krzywinski. Photo by Michal Augustini. (more)

I discuss the math behind the video and the system I built to create the video.