How can I convert .ali file to FASTA format?
I found .ali file with alignment in this article but I can't open it properly, can you please suggest some programs or web applications to convert it to a more convenient format?
• 1,926 views
•
link
updated
by
Ram
•
written
by
Vladimir Leshuk •
•
written
by
Vladimir Leshuk •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Understand the Fields from Illumina Infinium Genotype Report
written by pfee418 •
-
Tool: driveR - Prioritizing Cancer Driver Genes Using Genomics Data
written by egeulgen
-
TCGA LUAD clinical dataset iCluster.group variable
written by up201505092 •
-
How to customize the values?
written by USER •
-
Free PMC Article access through FTP service - NCBI
written by vighnesh202 •
-
SAM / BAM alignments
written by John
-
Processing SOLiD data but cannot find relevant documentation on tools (BFAST)
written by ehzed •
-
Forum: Bioinformatics short paper journal resource [software/webapps/database]
written by Sukhi Singh
-
Tutorial: InsideDNA: Samtools guide: learning how to filter and manipulate with SAM/BAM files
written by shilparaopradeep •
-
Forum: Principles of Tidy Data (Hadley Wickham) and the VCF format
written by Giovanni M Dall'Olio
You can open it with a text editor (vi, nano, gedit, geany, textpad etc on GNU-linux, notepad++ on windows). However, the file seems to be in non-standard .ali format. There are many ali files and I looked at 13062_2009_161_MOESM2_ESM.ali.
Try this script:
tr -s $'\t' < 13062_2009_161_MOESM2_ESM.ali | awk -v OFS="\n" '{print ">"$1,$2}' > 13062_2009_161_MOESM2_ESM.faThanks a lot!!! Your script has solved my problem)