fragpipe_input

Output of FragPipe TMT PTM experiment

Bundled with MSstatsPTM · exported, loads via data()

Class

data.frame

Dimensions

346 × 29

Missing

Format

rda · gzip

version 3 · 37 KB

File

data/fragpipe_input.rda

Fingerprint

97cd4b28

Format documented

Yes

Source

Source not stated

About this object

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

Columns

Column

Type

Distinct

Missing

Summary

Spectrum.Name

character

346

52 characters

Spectrum.File

character

43 characters

Peptide.Sequence

character

141

7 – 33 characters

Modified.Peptide.Sequence

character

190

18 – 49 characters

Probability

numeric

152

0.599 – 1mean 0.9623

Min.

0.599

1st Qu.

0.9782

Median

0.9997

Mean

0.9623

3rd Qu.

Max.

Std. dev

0.0794

Skewness

-2.411

Kurtosis

5.212

Outliers

6262 low · 0 high

Charge

integer

2 – 6mean 2.905

Min.

1st Qu.

Median

Mean

2.9046

3rd Qu.

Max.

Std. dev

0.6892

Skewness

0.867

Kurtosis

2.272

Outliers

80 low · 8 high

Protein.Start

integer

129

6 – 2736mean 944.8

Min.

1st Qu.

246.5

Median

852

Mean

944.812

3rd Qu.

1478

Max.

2736

Std. dev

719.357

Skewness

0.4463

Kurtosis

-0.8054

Protein.End

integer

116

14 – 2745mean 957.5

Min.

1st Qu.

257.25

Median

870

Mean

957.457

3rd Qu.

1487

Max.

2745

Std. dev

719.302

Skewness

0.4397

Kurtosis

-0.8079

Gene

character

4 – 7 characters

Mapped.Genes

character

0 – 5 characters·341 blank

Protein

character

20 – 21 characters

Protein.ID

character

6 characters

Mapped.Proteins

character

0 – 21 characters·341 blank

Protein.Description

character

8 – 45 characters

Is.Unique

character

4 – 5 characters

Purity

numeric

0 – 1mean 0.8141

Min.

1st Qu.

0.7

Median

Mean

0.8141

3rd Qu.

Max.

Std. dev

0.2939

Skewness

-1.708

Kurtosis

2.005

Zeros

Outliers

2828 low · 0 high

Intensity

numeric

325

0 – 8310267392mean 3.513e+8

Min.

1st Qu.

1.37293e+7

Median

38636890

Mean

3.51333e+8

3rd Qu.

165299972

Max.

8310267392

Std. dev

1.02876e+9

Skewness

4.782

Kurtosis

25.32

Zeros

Outliers

530 low · 53 high

M.15.9949

character

0 – 32 characters·323 blank

STY.79.966331

character

324

15 – 92 characters

Channel.126

numeric

345

0 – 10178060mean 1.61e+5

Min.

1st Qu.

25082.1

Median

53036

Mean

161002

3rd Qu.

121996

Max.

10178060

Std. dev

613390

Skewness

13.15

Kurtosis

204.4

Zeros

Outliers

360 low · 36 high

Channel.127N

numeric

345

0 – 13056233mean 1.808e+5

Min.

1st Qu.

29217.8

Median

58047.3

Mean

180829

3rd Qu.

135663

Max.

13056233

Std. dev

772470

Skewness

13.96

Kurtosis

222.5

Zeros

Outliers

290 low · 29 high

Channel.127C

numeric

346

0 – 9168843mean 1.605e+5

Min.

1st Qu.

28474.6

Median

59410.6

Mean

160512

3rd Qu.

130966

Max.

9168843

Std. dev

564263

Skewness

12.48

Kurtosis

187.5

Zeros

Outliers

290 low · 29 high

Channel.128N

numeric

345

0 – 12224870mean 2.077e+5

Min.

1st Qu.

31759.1

Median

69666.1

Mean

207727

3rd Qu.

163649

Max.

12224870

Std. dev

745339

Skewness

12.76

Kurtosis

194.6

Zeros

Outliers

350 low · 35 high

Channel.128C

numeric

346

0 – 17776336mean 2.969e+5

Min.

1st Qu.

49795.1

Median

102896

Mean

296923

3rd Qu.

230436

Max.

17776336

Std. dev

1.09438e+6

Skewness

12.7

Kurtosis

189.6

Zeros

Outliers

350 low · 35 high

Channel.129N

numeric

346

802.313 – 15656733mean 2.611e+5

Min.

802.313

1st Qu.

37559.8

Median

79135.4

Mean

261140

3rd Qu.

179079

Max.

15656733

Std. dev

991652

Skewness

11.95

Kurtosis

170.6

Outliers

370 low · 37 high

Channel.129C

numeric

345

0 – 16724128mean 2.571e+5

Min.

1st Qu.

40179

Median

86319.2

Mean

257095

3rd Qu.

197129

Max.

16724128

Std. dev

1.00584e+6

Skewness

13.35

Kurtosis

207.5

Zeros

Outliers

330 low · 33 high

Channel.130N

numeric

345

0 – 13863106mean 2.217e+5

Min.

1st Qu.

41120.7

Median

83460.9

Mean

221733

3rd Qu.

173130

Max.

13863106

Std. dev

832921

Skewness

13.35

Kurtosis

207.7

Zeros

Outliers

300 low · 30 high

Channel.130C

numeric

344

0 – 9624090mean 1.795e+5

Min.

1st Qu.

31380.5

Median

67161.4

Mean

179497

3rd Qu.

142681

Max.

9624090

Std. dev

603225

Skewness

12.03

Kurtosis

175

Zeros

Outliers

360 low · 36 high

Channel.131N

numeric

345

0 – 10028364mean 1.689e+5

Min.

1st Qu.

31431.2

Median

62460.4

Mean

168859

3rd Qu.

131056

Max.

10028364

Std. dev

608571

Skewness

Kurtosis

199.1

Zeros

Outliers

330 low · 33 high

Version history

Version	Released	Size	Change	Stored as	Confidence
3.23	2026-04-28	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.22	2025-10-29	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.21	2025-08-25	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.20	2024-11-25	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.19	2024-09-24	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.18	2024-02-13	346 × 29	Unchanged	rda · gzip version 3 · 37 KB	exact
3.17	2023-06-27	346 × 29	–	rda · gzip version 3 · 37 KB	exact