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lung_phenotype_data

Bundled with monocle · provided in inst/extdata, read by path with system.file()

Class
data.frame
Dimensions
185 × 28
Missing
1
Format
rda · gzip
version 2 · 16 KB
File
inst/extdata/lung_phenotype_data.RData
Fingerprint
264cf6ec
About this object
A table with named columnsA bordered table: a header band ruled off from the body with an empty slot over each column where its name goes, and rows of cells under it that share every edge. Nothing is in any of them.

Equal-length columns presented as a table, R's standard rectangular format. R object catalogue

Declared attributes
Row names
Yes
Columns
Column
Type
Distinct
Missing
Summary
file
factor
185
0
./quantification/SRR1033854_clout/abundances.cxb1./quantification/SRR1033855_clout/abundances.cxb1./quantification/SRR1033856_clout/abundances.cxb1./quantification/SRR1033859_clout/abundances.cxb1./quantification/SRR1033860_clout/abundances.cxb1./quantification/SRR1033861_clout/abundances.cxb1+193 more
Levels
199
Used
185
Unused
14
Rows per level, the 50 commonest of 199
./quantification/SRR1033854_clout/abundances.cxb1./quantification/SRR1033855_clout/abundances.cxb1./quantification/SRR1033856_clout/abundances.cxb1./quantification/SRR1033859_clout/abundances.cxb1./quantification/SRR1033860_clout/abundances.cxb1./quantification/SRR1033861_clout/abundances.cxb1./quantification/SRR1033862_clout/abundances.cxb1./quantification/SRR1033863_clout/abundances.cxb1./quantification/SRR1033864_clout/abundances.cxb1./quantification/SRR1033867_clout/abundances.cxb1./quantification/SRR1033869_clout/abundances.cxb1./quantification/SRR1033871_clout/abundances.cxb1./quantification/SRR1033872_clout/abundances.cxb1./quantification/SRR1033873_clout/abundances.cxb1./quantification/SRR1033874_clout/abundances.cxb1./quantification/SRR1033875_clout/abundances.cxb1./quantification/SRR1033876_clout/abundances.cxb1./quantification/SRR1033877_clout/abundances.cxb1./quantification/SRR1033878_clout/abundances.cxb1./quantification/SRR1033879_clout/abundances.cxb1./quantification/SRR1033880_clout/abundances.cxb1./quantification/SRR1033881_clout/abundances.cxb1./quantification/SRR1033882_clout/abundances.cxb1./quantification/SRR1033883_clout/abundances.cxb1./quantification/SRR1033884_clout/abundances.cxb1./quantification/SRR1033885_clout/abundances.cxb1./quantification/SRR1033886_clout/abundances.cxb1./quantification/SRR1033887_clout/abundances.cxb1./quantification/SRR1033888_clout/abundances.cxb1./quantification/SRR1033889_clout/abundances.cxb1./quantification/SRR1033890_clout/abundances.cxb1./quantification/SRR1033891_clout/abundances.cxb1./quantification/SRR1033892_clout/abundances.cxb1./quantification/SRR1033893_clout/abundances.cxb1./quantification/SRR1033894_clout/abundances.cxb1./quantification/SRR1033895_clout/abundances.cxb1./quantification/SRR1033896_clout/abundances.cxb1./quantification/SRR1033897_clout/abundances.cxb1./quantification/SRR1033898_clout/abundances.cxb1./quantification/SRR1033899_clout/abundances.cxb1./quantification/SRR1033900_clout/abundances.cxb1./quantification/SRR1033901_clout/abundances.cxb1./quantification/SRR1033902_clout/abundances.cxb1./quantification/SRR1033904_clout/abundances.cxb1./quantification/SRR1033905_clout/abundances.cxb1./quantification/SRR1033906_clout/abundances.cxb1./quantification/SRR1033907_clout/abundances.cxb1./quantification/SRR1033908_clout/abundances.cxb1./quantification/SRR1033909_clout/abundances.cxb1./quantification/SRR1033910_clout/abundances.cxb1
total_mass
numeric
185
0
392 – 4086580mean 1.426e+6
Min.
392
1st Qu.
149461
Median
1346690
Mean
1.42629e+6
3rd Qu.
2417940
Max.
4086580
Std. dev
1.25141e+6
Skewness
0.3528
Kurtosis
-1.252
internal_scale
numeric
185
0
0.0015 – 11.0584mean 2.165
Min.
0.0015
1st Qu.
0.2971
Median
1.5474
Mean
2.1651
3rd Qu.
3.4334
Max.
11.0584
Std. dev
2.2026
Skewness
1.193
Kurtosis
1.096
Outliers
40 low · 4 high
external_scale
integer
1
0
1
median_transcript_frags
numeric
185
0
1.0313e-6 – 3.4837mean 0.0595
Min.
1.0313e-6
1st Qu.
0.0003
Median
0.0035
Mean
0.0595
3rd Qu.
0.0257
Max.
3.4837
Std. dev
0.2745
Skewness
10.7
Kurtosis
128.3
Outliers
270 low · 27 high
BioSample
factor
185
0
SAMN024154141SAMN024154151SAMN024154161SAMN024154171SAMN024154181SAMN024154191+195 more
Levels
201
Used
185
Unused
16
Rows per level, the 50 commonest of 201
SAMN024154141SAMN024154151SAMN024154161SAMN024154171SAMN024154181SAMN024154191SAMN024154201SAMN024154211SAMN024154221SAMN024154231SAMN024154241SAMN024154251SAMN024154261SAMN024154271SAMN024154281SAMN024154291SAMN024154301SAMN024154311SAMN024154321SAMN024154331SAMN024154341SAMN024154351SAMN024154361SAMN024154371SAMN024154381SAMN024154391SAMN024154401SAMN024154411SAMN024154421SAMN024154431SAMN024154441SAMN024154451SAMN024154461SAMN024154471SAMN024154481SAMN024154491SAMN024154501SAMN024154511SAMN024154521SAMN024154531SAMN024154541SAMN024154551SAMN024154561SAMN024154571SAMN024154581SAMN024154591SAMN024154601SAMN024154611SAMN024154621SAMN024154631
age
factor
4
0
Embryonic day 18.568post natal day 10746Embryonic day 14.544Embryonic day 16.527
genotype
factor
2
0
wild type139Sftpc-Cre-ERT2-rtta -/- tetO-HIST1H2BJ-GFP+/-)46
Sample.Name
factor
185
0
GSM12718631GSM12718641GSM12718651GSM12718681GSM12718691GSM12718701+195 more
Levels
201
Used
185
Unused
16
Rows per level, the 50 commonest of 201
GSM12718631GSM12718641GSM12718651GSM12718681GSM12718691GSM12718701GSM12718711GSM12718721GSM12718731GSM12718761GSM12718781GSM12718801GSM12718811GSM12718821GSM12718831GSM12718841GSM12718851GSM12718861GSM12718871GSM12718881GSM12718891GSM12718901GSM12718911GSM12718921GSM12718931GSM12718941GSM12718951GSM12718961GSM12718971GSM12718981GSM12718991GSM12719001GSM12719011GSM12719021GSM12719031GSM12719041GSM12719051GSM12719061GSM12719071GSM12719081GSM12719091GSM12719101GSM12719111GSM12719131GSM12719141GSM12719151GSM12719161GSM12719171GSM12719181GSM12719191
SRA.Sample
factor
185
0
SRS5048901SRS5048921SRS5048931SRS5048961SRS5048971SRS5048981+195 more
Levels
201
Used
185
Unused
16
Rows per level, the 50 commonest of 201
SRS5048901SRS5048921SRS5048931SRS5048961SRS5048971SRS5048981SRS5048991SRS5049001SRS5049011SRS5049041SRS5049061SRS5049081SRS5049091SRS5049101SRS5049111SRS5049121SRS5049131SRS5049141SRS5049151SRS5049161SRS5049171SRS5049181SRS5049191SRS5049201SRS5049211SRS5049221SRS5049231SRS5049241SRS5049251SRS5049261SRS5049271SRS5049281SRS5049291SRS5049301SRS5049311SRS5049321SRS5049331SRS5049341SRS5049351SRS5049361SRS5049371SRS5049381SRS5049391SRS5049411SRS5049421SRS5049431SRS5049441SRS5049451SRS5049461SRS5049471
MBases
integer
170
0
0 – 961mean 454.1
Min.
0
1st Qu.
295
Median
466
Mean
454.103
3rd Qu.
620
Max.
961
Std. dev
237.875
Skewness
0.0405
Kurtosis
-0.6507
Zeros
1
MBytes
integer
152
0
0 – 705mean 326.2
Min.
0
1st Qu.
215
Median
333
Mean
326.238
3rd Qu.
449
Max.
705
Std. dev
176.577
Skewness
0.0664
Kurtosis
-0.6173
Zeros
1
SRA.Study
factor
1
0
SRP033209185
BioProject
factor
1
0
GSE52583185
source_name
factor
1
0
distal lung epithelium185
strain
factor
1
0
C57BL/6J185
tissue
factor
1
0
lung185
Assay.Type
factor
1
0
RNA-Seq185
Center.Name
factor
1
0
GEO185
Platform
factor
1
0
ILLUMINA185
Consent
factor
1
0
public185
Time
character
4
0
5 characters
Size_Factor
numeric
185
0
0.2897 – 4.081mean 1.192
Min.
0.2897
1st Qu.
0.5799
Median
0.9502
Mean
1.1922
3rd Qu.
1.6975
Max.
4.081
Std. dev
0.7348
Skewness
1.115
Kurtosis
1.011
Outliers
30 low · 3 high
Total_mRNAs
numeric
185
0
13177.6 – 127126mean 3.944e+4
Min.
13177.6
1st Qu.
21390.2
Median
32196.4
Mean
39437.1
3rd Qu.
53222.1
Max.
127126
Std. dev
22430.5
Skewness
1.16
Kurtosis
1.101
Outliers
40 low · 4 high
endogenous_RNA
numeric
185
0
251.115 – 194030mean 4.683e+4
Min.
251.115
1st Qu.
15824.6
Median
34932.8
Mean
46833.3
3rd Qu.
72574.5
Max.
194030
Std. dev
37397.2
Skewness
1.105
Kurtosis
1.003
Outliers
30 low · 3 high
Pseudotime
numeric
185
0
0 – 28.459mean 16.35
Min.
0
1st Qu.
8.1124
Median
19.4365
Mean
16.3517
3rd Qu.
24.0512
Max.
28.459
Std. dev
8.7332
Skewness
-0.4752
Kurtosis
-1.23
Zeros
1
State
factor
3
0
171258356
Parent
factor
183
1
SRR1033873_02SRR1033854_01SRR1033855_01SRR1033859_01SRR1033860_01SRR1033861_01+177 more
Levels
183
Used
183
Rows per level, the 50 commonest of 183
SRR1033873_02SRR1033854_01SRR1033855_01SRR1033859_01SRR1033860_01SRR1033861_01SRR1033862_01SRR1033863_01SRR1033864_01SRR1033867_01SRR1033869_01SRR1033872_01SRR1033874_01SRR1033875_01SRR1033876_01SRR1033877_01SRR1033878_01SRR1033879_01SRR1033880_01SRR1033881_01SRR1033882_01SRR1033883_01SRR1033884_01SRR1033885_01SRR1033886_01SRR1033887_01SRR1033888_01SRR1033889_01SRR1033890_01SRR1033891_01SRR1033892_01SRR1033893_01SRR1033894_01SRR1033895_01SRR1033896_01SRR1033897_01SRR1033898_01SRR1033899_01SRR1033900_01SRR1033901_01SRR1033902_01SRR1033904_01SRR1033905_01SRR1033906_01SRR1033907_01SRR1033908_01SRR1033909_01SRR1033910_01SRR1033911_01SRR1033914_01
Version history
VersionReleasedSizeChangeStored asConfidence
3.232026-04-28185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.222025-10-29185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.212025-04-15185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.202024-10-29185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.192024-04-30185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.182024-04-01185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.172023-04-25185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.162022-11-01185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.152022-06-08185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.142021-10-26185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.132021-05-19185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.122020-10-27185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.112020-04-27185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.102019-10-29185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.92019-05-02185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.82019-01-04185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.72018-04-30185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.62018-04-02185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.52017-04-24185 × 28Unchangedrda · gzip
version 2 · 16 KB
exact
3.42016-10-27185 × 28–rda · gzip
version 2 · 16 KB
exact

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