R语言如何在行上取数据子集
R语言如何在行上取数据子集
本篇内容介绍了“R语言如何在行上取数据子集”的有关知识，在实际案例的操作过程中，不少人都会遇到这样的困境，接下来就让小编带领大家学习一下如何处理这些情况吧！希望大家仔细阅读，能够学有所成！
subset_row.r 提供列表，在行上取数据子集
使用方法：
usage:/share/nas1/huangls/test/TCGA_GEO_immu/scripts/subset_row.r[-h]-iinput-midlist-ccolname[-ooutdir][-pprefix]getsubsetbyIDoptionalarguments:-h,--helpshowthishelpmessageandexit-iinput,--inputinputinputdatamatrixdata[required]-midlist,--idlistidlistinputidlist[required]-ccolname,--colnamecolnamematchcolumnnameinidlistandinput[required]-ooutdir,--outdiroutdiroutputfiledirectory[defaultcwd]-pprefix,--prefixprefixoutputfilenameprefix[defaultdemo]
参数说明：
-i 输入要取子集的数据，
| ID | TCGA-D7-A74A-01A-11R-A32D-31 | TCGA-BR-7704-01A-11R-2055-13 | TCGA-VQ-A91N-01A-11R-A414-31 | TCGA-CD-A4MH-01A-11R-A251-31 | TCGA-BR-7715-11A-01R-2055-13 | TCGA-EQ-8122-01A-11R-2343-13 | TCGA-BR-7704-11A-01R-2055-13 | TCGA-VQ-A91Y-01A-11R-A414-31 |
| TSPAN6 | 5.607434 | 4.574163 | 14.39654 | 27.34667 | 7.381342 | 7.094949 | 4.638539 | 3.431114 |
| TNMD | 0.036605 | 0 | 0 | 0.10144 | 0.069677 | 0.013961 | 0.088328 | 0 |
| DPM1 | 47.27602 | 69.15157 | 39.07867 | 54.38476 | 34.75987 | 53.74329 | 17.22876 | 45.18002 |
| SCYL3 | 2.480883 | 1.120544 | 4.504755 | 2.020254 | 2.454489 | 2.806747 | 1.956408 | 2.751801 |
| C1orf112 | 1.972838 | 0.657791 | 4.021506 | 1.796665 | 0.86856 | 2.489893 | 0.568309 | 1.631315 |
| FGR | 0.640395 | 5.705655 | 0.768222 | 1.897257 | 5.528251 | 2.128635 | 2.707995 | 2.874438 |
| CFH | 1.005737 | 4.231042 | 3.06005 | 2.499263 | 17.27662 | 3.249414 | 12.7978 | 8.515792 |
| FUCA2 | 29.32949 | 35.97601 | 31.40956 | 33.73129 | 21.70492 | 45.04622 | 16.3126 | 17.08673 |
| GCLC | 8.669732 | 7.575979 | 7.387031 | 6.207049 | 4.920366 | 11.9263 | 4.398624 | 6.320377 |
| NFYA | 7.260346 | 8.435074 | 9.566617 | 10.99219 | 6.49941 | 7.3871 | 7.003742 | 6.259676 |
-m 指定ID列表，-c 指定 ID列表中的列名：
| ID | log2FC | logCPM | PValue | FDR | regulate |
| FGR | 1.15187 | 3.546373 | 3.56E-41 | 2.75E-39 | Up |
| CFH | 1.148486 | 6.292113 | 2.77E-25 | 5.74E-24 | Up |
| CD38 | 1.629447 | 4.320928 | 1.23E-28 | 3.14E-27 | Up |
| HSPB6 | 3.013333 | 7.468948 | 8.24E-38 | 4.57E-36 | Up |
| PDK4 | 1.05844 | 6.536584 | 1.98E-09 | 9.88E-09 | Up |
| MEOX1 | 1.595276 | 2.077971 | 2.50E-36 | 1.21E-34 | Up |
| COPZ2 | 1.016028 | 3.043114 | 1.38E-19 | 1.85E-18 | Up |
| PRKAR2B | 1.529285 | 4.016024 | 6.52E-35 | 2.73E-33 | Up |
| ITGAL | 1.595675 | 5.118729 | 2.03E-47 | 3.33E-45 | Up |
使用举例：
Rscript$scriptdir/subset_row.r-m../04.deg/S1_vs_S2.edger.DEG.final.tsv-cID\-i../02.sample_select/TCGA-STAD_gene_expression_TPM.tsv-pdeg_gene_exp_tpm
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