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5 votes
3 answers

How to append numbers only on duplicates sequence names?

I have a reference database with contains 100s of sequences in fasta format. Some of these sequences have duplicate names like so: ...
AudileF's user avatar
  • 945
5 votes
1 answer

Obtaining data table headers from GEO using GEOquery

For a study in GEO, I would like to obtain the data table header descriptions, specifically the "VALUE" column for all samples in the study. If you go here:
Ezra Bekele's user avatar
13 votes
4 answers

How do I efficiently subset a very large line-based file?

This has come up repeatedly recently: I have a very large text file (in the order of several GiB) and I need to perform line-based subsetting for around 10,000 lines. There exist solutions for ...
Konrad Rudolph's user avatar