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linux - 如何从多个文件中提取特定信息并在linux中制作表格？

问题描述

我有多个包含信息的文本文件。在这里，我展示了两个文本文件，如下所示：

样本1.txt

Status  /documents/Sample1.sorted.bam
Assigned        50945040
Unassigned_Unmapped     947866
Unassigned_MappingQuality       0
Unassigned_Chimera      0
Unassigned_FragmentLength       0
Unassigned_Duplicate    0
Unassigned_MultiMapping 49013681
Unassigned_Secondary    0
Unassigned_Nonjunction  0
Unassigned_NoFeatures   21189312
Unassigned_Overlapping_Length   0
Unassigned_Ambiguity    4430011

样本2.txt

Status  /documents/Sample2.sorted.bam
Assigned        36335614
Unassigned_Unmapped     870456
Unassigned_MappingQuality       0
Unassigned_Chimera      0
Unassigned_FragmentLength       0
Unassigned_Duplicate    0
Unassigned_MultiMapping 68688141
Unassigned_Secondary    0
Unassigned_Nonjunction  0
Unassigned_NoFeatures   23746485
Unassigned_Overlapping_Length   0
Unassigned_Ambiguity    3734593

对于单个文本文件，我使用 grep：

grep "Assigned\|Unmapped\|MultiMapping\|NoFeatures\|Ambiguity" Sample1.txt > output.txt

但我希望输出如下所示，我可以在所有文本文件上使用一个小脚本并制作表格：

                        Sample1       Sample2
Assigned                50945040      36335614
Unassigned_Unmapped     947866        870456
Unassigned_MultiMapping 49013681      68688141
Unassigned_NoFeatures   21189312      23746485
Unassigned_Ambiguity    4430011       3734593

标签： linuxgreptext-filestabulartext-extraction

解决方案

$ cat tst.awk
$2 != 0 {
    printf "%s%s", (NR>1 ? $1 : "Name"), OFS
    for (i=2; i<=NF; i+=2) {
        gsub(/^.*\/|\..*$/,"",$i)
        printf "%s%s", $i, (i<NF ? OFS : ORS)
    }
}

$ paste Sample1.txt Sample2.txt | awk -f tst.awk | column -t
Name                     Sample1   Sample2
Assigned                 50945040  36335614
Unassigned_Unmapped      947866    870456
Unassigned_MultiMapping  49013681  68688141
Unassigned_NoFeatures    21189312  23746485
Unassigned_Ambiguity     4430011   3734593

要获得 Excel 可以理解的输出而不是问题中显示的输出，请执行以下操作：

$ cat tst.awk
BEGIN { OFS="," }
$2 != 0 {
    printf "%s%s", (NR>1 ? $1 : "Name"), OFS
    for (i=2; i<=NF; i+=2) {
        gsub(/^.*\/|\..*$/,"",$i)
        printf "%s%s", $i, (i<NF ? OFS : ORS)
    }
}

$ paste Sample1.txt Sample2.txt | awk -f tst.awk > output.csv

然后双击 output.csv 以使用 Excel 打开它。

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