001、方法1
(base) root@PC1:/home/test2# ls
a.fasta test.py
(base) root@PC1:/home/test2# cat a.fasta ## 测试fasta文件
>gene1 myc
AGCTGCCTAAGC
GGCATAGCTAATCG
>gene2 jun
ACCGAATCGGAGCGATG
GGCATTAAAGATCTAGCT
>gene3 malat1
AGGCTAGCGAG
GCGCGAG
GATTAGGCG
(base) root@PC1:/home/test2# cat test.py ## 测试程序
#!/usr/bin/python
in_file = open("a.fasta", "r")
idx = 0
for i in in_file:
i = i.strip()
if i[0] == ">":
if idx > 0:
print("")
idx += 1
print(i.split(" ")[0].split(">")[1])
else:
print(i, end = "")
print("")
in_file.close()
(base) root@PC1:/home/test2# python test.py ## 执行程序
gene1
AGCTGCCTAAGCGGCATAGCTAATCG
gene2
ACCGAATCGGAGCGATGGGCATTAAAGATCTAGCT
gene3
AGGCTAGCGAGGCGCGAGGATTAGGCG
002、方法2
(base) root@PC1:/home/test2# ls
a.fasta test.py
(base) root@PC1:/home/test2# cat a.fasta ## 测试fasta文件
>gene1 myc
AGCTGCCTAAGC
GGCATAGCTAATCG
>gene2 jun
ACCGAATCGGAGCGATG
GGCATTAAAGATCTAGCT
>gene3 malat1
AGGCTAGCGAG
GCGCGAG
GATTAGGCG
(base) root@PC1:/home/test2# cat test.py ## 测试程序
#!/usr/bin/python
in_file = open("a.fasta", "r")
dict1 = {}
for i in in_file:
i = i.strip()
if i[0] == ">":
key = i.split(" ")[0].split(">")[1]
dict1[key] = ""
else:
dict1[key] += i
for i,j in dict1.items():
print(i)
print(j)
in_file.close()
(base) root@PC1:/home/test2# python test.py ## 执行程序
gene1
AGCTGCCTAAGCGGCATAGCTAATCG
gene2
ACCGAATCGGAGCGATGGGCATTAAAGATCTAGCT
gene3
AGGCTAGCGAGGCGCGAGGATTAGGCG
参考:https://www.jianshu.com/p/403a23fdd7bb