User: Pilar E.
- New User
- Groningen, NL
- Last seen:
- 7 years, 11 months ago
- 8 years, 1 month ago
Posts by Pilar E.
... Hello everybody, I am analysing SNPs and INDELs in several prokaryotic genomes of the same strain. My goal is to compare them with a reference genome . I would like to learn how to plot the SNPs in a circular plot. It means, that in one plot I can have my reference strain (in the inside for exampl ...
... Thanks for answering !Here is the BWA : read_fasta -i reference.fasta | mutate_seq -n 5 | indel_seq -i 5 -d 5 | write_fasta -xo mutant.fna read_fasta -i mutant.fna | shred_seq -s 100 -c 50 | add_ident -k SEQ_NAME | write_fasta -xo reads.fna mkdir BWA (for alignment files) bwa index -p BWA/Ecoli refe ...
... Hello everybody, Could anyone tell me how to get SNPs using SAMtools???. I am learning how to do it but can´t get the SNPs, I only get the Indels. I am working with a mutant I created from an E coli genome (just for practice). The mutant was created with 5 mismatches, 5 insertions and 5 deletions ...
Latest awards to Pilar E.
Appreciated 8.1 years ago, created a post with more than 5 votes. For How To Make A Circular Plot Of Snps And Indels ??
Popular Question 8.1 years ago, created a question with more than 1,000 views. For How To Make A Circular Plot Of Snps And Indels ??
Student 8.1 years ago, asked a question with at least 3 up-votes. For How To Make A Circular Plot Of Snps And Indels ??
Student 8.1 years ago, asked a question with at least 3 up-votes. For Can´T Find The Snps With Samtools (Only Get Indels)
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