3
votes
Accepted
Tidying MEGAN Taxonomy for Python/R Analysis
Save the following as a python script (e.g., named splitty.py). Make the script executable by doing chmod +x splitty.py. Then, ...
- 497
3
votes
Accepted
How to write multi-sequence alignment data frame as a fasta format fast
Update
It seems that part of the desired behavior is to write the sequences in the alignment separately. I am not sure that I understand why it is necessary to write them separately. Generally it is ...
- 3,649
2
votes
Accepted
editing dataframe in r
Adding an answer for now:
You can use sub to remove the SVLEN= part. You don't need gsub and ...
- 1,993
2
votes
Accepted
Help to create a dataframe in Python from a FASTA file
Assuming what I said in the comments is true. Here's my attempt, there may be an easier solution but this should do it:
...
- 1,105
2
votes
Accepted
Adding multiple dataframes to compare against genotypes - DATE/LOCATION - geotemporal incidences of SARS2 genotypes
Just to clarify, when I asked you to share some of your files, I meant to share them in a way that I can reproduce your issue from start to finish. You read from at least four different files in a ...
2
votes
Accepted
Converting hmmer --tblout to pandas dataframe
The manual says fields in a tabular output file are space-delimited. It should be fairly straightforward to load a space-delimited file in pandas.
From the manual:
...
- 1,993
2
votes
2
votes
Accepted
replacement has 1 row, data has 0
I suspect the error is caused by a 'lack' of intersection between "NQLD", "Nlab", and "Nsyl"? If you remove "Nlab" from the first query the command appears to ...
- 695
2
votes
Turning GMT file into data frame so that third column is comma seperated
I used the unite function from tidyr but first I read the gmt file in as a data table using the read.delim function (with header set to False). Then I used unite:
...
- 153
1
vote
Merge data frame on either of the 2 columns in R or python
I think this question is more about subsetting than merging. You can try this solution in R:
...
- 313
1
vote
HTTP status code: 400 "Value must be an integer" error uploading JSON schema results to benchling
There is a major issue about the json format required, however just converting to json is easy because ...
M__♦
- 11.3k
1
vote
How to identify matching and unique rows across different columns in R data-frame?
When I create the dataframe using the commands you have provided, I get an error, and the data frame can't be created:
...
- 13.5k
1
vote
Merge/Join one data frame (X) to multiple data frames separately
You can use For Loop here. Here I have created code using your algorithm, first created a list of merged dataframes and then split the list into separate dataframes.
...
- 313
1
vote
Help to create a dataframe in Python from a FASTA file
An example of contructing a pandas dataframe for fasta on Stack Exchange is here . This is clean code deploying zip outside Biopython. Constructing a pandas ...
M__♦
- 11.3k
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