我实际使用R来删除重复的序列,例如:
seq1 seq2
seq2 seq1
seq3 seq4
seq5 seq6
并获取
seq1 seq2
seq3 seq4
seq5 seq6
做:
data<-read.table("dataframe.txt")
for (i in 1:nrow(data))
{
data[i,c(2,3)] = sort(data[i,c(2,3)])
}
data2 = data[!duplicated(data[,c(2,3)]),]
write.csv(data2,"data_without_duplicated")
有人知道如何用熊猫做这件事吗?
以下是真实数据的示例:
cluster_name qseqid sseqid pident_x pident_y length qstart qend sstart send qspec sspec
13 cluster_016663 EOG090X00GO_0035_0035_1 EOG090X00GO_0042_0035_1 0.93 93.0 1179 1 1175 1 1179 0035 0042
14 cluster_016663 EOG090X00GO_0035_0035_1 EOG090X00GO_0042_0042_1 0.93 93.0 1179 1 1175 1 1179 0035 0042
16 cluster_016663 EOG090X00GO_0035_0042_1 EOG090X00GO_0042_0035_1 0.93 93.0 1179 1 1175 1 1179 0035 0042
17 cluster_016663 EOG090X00GO_0035_0042_1 EOG090X00GO_0042_0042_1 0.93 93.0 1179 1 1175 1 1179 0035 0042
19 cluster_016663 EOG090X00GO_0042_0035_1 EOG090X00GO_0035_0035_1 0.93 93.0 1179 1 1179 1 1175 0042 0035
20 cluster_016663 EOG090X00GO_0042_0035_1 EOG090X00GO_0035_0042_1 0.93 93.0 1179 1 1179 1 1175 0042 0035
22 cluster_016663 EOG090X00GO_0042_0042_1 EOG090X00GO_0035_0035_1 0.93 93.0 1179 1 1179 1 1175 0042 0035
23 cluster_016663 EOG090X00GO_0042_0042_1 EOG090X00GO_0035_0042_1 0.93 93.0 1179 1 1179 1 1175 0042 0035
这是我的剧本:
data_wo_eqSpec.to_csv("dataframe.txt", sep='\t')
print("prem1:",data_wo_eqSpec.shape)
data_wo_eqSpec=data_wo_eqSpec.astype(str)
data_wo_eqSpec.iloc[:,1:3]=np.sort(data_wo_eqSpec.iloc[:,1:3].values,1)
data_wo_eqSpec2= data_wo_eqSpec.drop_duplicates(list(data_wo_eqSpec.iloc[:,1:3]))
print("prem:",data_wo_eqSpec2.shape)
data_wo_eqSpec=pd.read_csv("data_without_duplicated")
print("deus:",data_wo_eqSpec.shape)
以下是数据:data