如何在python中将一列拆分为两列？
[英]How to split one column into two columns in python?
问题描述
I have a contig file loaded in pandas like this:
我在熊猫中加载了一个 contig 文件，如下所示：
>NODE_1_length_4014_cov_1.97676
1 AATTAATGAAATAAAGCAAGAAGACAAGGTTAGACAAAAAAAAGAG...
2 CAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTAC...
3 CCTGAAAGTGACGGGGAGAATGGAACCAAGTTGGAAAACACTCTGC...
4 GAGAACTTCCCCAATCTAGCAAGGCAGGCCAACATTCAAATTCAGG...
5 CCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTG...
6 GTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTC...
7 GGGAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTAC...
8 TGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCA...
9 GCCAAACTAAGCTTCATAAGCAAAGGAGAAATAAAATCCTTTACAG...
10 AGAGATTTTGTCACCACCAGGCCTGCCTTACAAGAGCTCCTGAAGG...
11 GAAAGGAAAAACCGGTACCAGCCACTGCAAAATCATGCCAAACTGT...
12 CTAGGAAGAAACTGCATCAACTAATGAGCAAAATAACCAGCTAACA...
13 TCAAATTCACACATAACAATATTAACCTTAAATGTAAATGGGCTAA...
14 AGACACAGACTGGCAAATTGGATAAAGAGTCAAGACCCATCAGTGT...
15 ACCCATCTCAAATGCAGAGACACACATAGGCTCAAAATAAAGGGAT...
16 CAAGCAAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCT...
17 TTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAA...
18 ATTCAACAAGAAGAGCTAACTATCCTAAATATATATGCACCCAATA...
19 TTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCC...
20 GGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACGAGAC...
21 GATATCCAGGAATTGAACTCAGCTCTGCACCAAGCGGACCTAATAG...
22 CTCCACCCCAAATCAACAGAATATACATTCTTTTCAGCACCACACC...
23 ATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAA...
24 ACAAACTGTCTCTCAGACCACAGTGCAATCAAATTAGAACTCAGGA...
25 CAAAACTGCTCAACTACATGAAAACTGAACAACCTGCTCCTGAATG...
26 AACAAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAATGAGA...
27 TACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAAT...
28 GCCCACAAGAGAAAGCAGGAAAGATCTAAAATTGACACCCTAACAT...
29 CTAGAGAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAG...
...
8540 >NODE_2518_length_56_cov_219
8541 CCCTTGTTGGTGTTACAAAGCCCTTGAACTACATCAGCAAAGACAA...
8542 >NODE_2519_length_56_cov_174
8543 CCGACTACTATCGAATTCCGCTCGACTACTATCGAATTCCGCTCGA...
8544 >NODE_2520_length_56_cov_131
8545 CCCAGGAGACTTGTCTTTGCTGATGTAGTTCAAGAGCTTTGTAACA...
8546 >NODE_2521_length_56_cov_118
8547 GGCTCCCTATCGGCTCGAATTCCGCTCGACTATTATCGAATTCCGC...
8548 >NODE_2522_length_56_cov_96
8549 CCCGCCCCCAGGAGACTTGTCTTTGCTGATAGTAGTCGAGCGGAAT...
8550 >NODE_2523_length_56_cov_74
8551 AGAGACTTGTCTTTGCTGATGTAGTTCAAGGGCTTTGTAACACCGA...
8552 >NODE_2524_length_56_cov_70
8553 TGCTCGACTACTATCGAATTCCGCTCGACTACTATCGAATTCCGCT...
8554 >NODE_2525_length_56_cov_59
8555 GAGACCCTTGTCGGTGTTACAAAGCCCTTTAACTACATCAGCAAAG...
8556 >NODE_2526_length_56_cov_48
8557 CCGACTACTATCGAATTCCGCTCGACTACTATCGAATTCCGCTCGA...
8558 >NODE_2527_length_56_cov_44
8559 CCAAGGGCTTTGTAACACCGACAAGGGTCTCGAAAACATCGGCATT...
8560 >NODE_2528_length_56_cov_42
8561 GAGACCCTTGTAGGTGTTACAAAGCCCTTGAACTACATCAGCAAAG...
8562 >NODE_2529_length_56_cov_38
8563 GAGACCCTTGTCGGTGTCACAAAGCCCTTGAACTACATCAGCAAAG...
8564 >NODE_2530_length_56_cov_29
8565 GAGGGCTTTGTAACACCGACAAGGGTCTCGAAAACATCGGCATTCT...
8566 >NODE_2531_length_56_cov_26
8567 AGGTTCAAGGGCTTTGTAACACCGACAAGGGTCTCGAAAACATCGG...
8568 >NODE_2532_length_56_cov_25
8569 GAGATGTGTATAAGAGACTTGTCTTTGCTGATGTAGTTCAAGGGCT...
How to split this one column into two columns, making >NODE_...... in one column and the corresponding sequence in another column?如何将这一列拆分为两列，使一列中的 >NODE_...... 和另一列中的相应序列？ Another issue is the sequences are in multiple lines, how to make them into one string?另一个问题是序列在多行中，如何将它们变成一个字符串？ The result is expected like this:结果是这样的：
contig sequence
NODE_1_length_4014_cov_1.97676 AAAAAAAAAAAAAAA
NODE_........ TTTTTTTTTTTTTTT
Thank you very much.非常感谢。
1 个解决方案
解决方案1
0 已采纳 2017-10-26 17:57:21
I can't reproduce your example, but my guess is that you are loading file with pandas that is not formatted in a tabular format.我无法重现您的示例，但我的猜测是您正在加载带有未格式化为表格格式的 Pandas 的文件。 From your example it looks like your file is formatted:从您的示例看来，您的文件已格式化：
>Identifier
sequence
>Identifier
sequence
You would have to parse the file before you can put the information into a pandas dataframe.您必须先解析文件，然后才能将信息放入 Pandas 数据框中。 The logic would be to loop through each line of your file, if the line starts with '>Node' you store the line as an identifier.逻辑是遍历文件的每一行，如果该行以 '>Node' 开头，则将该行存储为标识符。 If not you concatenate them to the sequence value.如果不是，则将它们连接到序列值。 Something like this:像这样的东西：
testfile = '>NODE_1_length_4014_cov_1.97676\nAAAAAAAATTTTTTCCCCCCCGGGGGG\n>NODE_2518_length_56_cov_219\nAAAAAAAAGCCCTTTTT'.split('\n')
identifiers = []
sequences = []
current_sequence = ''
for line in testfile:
if line.startswith('>'):
identifiers.append(line)
sequences.append(current_sequence)
current_sequence = ''
else:
current_sequence += line.strip('\n')
df = pd.DataFrame({'identifiers' = identifiers,
'sequences' = sequences})
Whether this code works depends on the details of your input which you didn't provide, but that might get you started.此代码是否有效取决于您未提供的输入的详细信息，但这可能会让您开始。
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