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FastaAlternateReferenceMaker creates different size fasta.

fastaalternatereferencemaker snp written 3 months ago by zaibunnisa.t • 0 • updated 3 months ago by WouterDeCoster ♦ 27k

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597

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GATK FastaAlternateReferenceMaker giving error

gatk fastaalternatereferencemaker written 18 months ago by PAn • 20

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919

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rename fasta headers in FastaAlternateReferenceMaker output

fasta bed header fastaalternatereferencemaker gatk written 21 months ago by mosquitoes • 0

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1.3k

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Fasta Alternate Reference Maker extracted fasta files are same as reference

gatk fastaalternatereferencemaker myposts written 2.7 years ago by nuketbilgen • 30 • updated 2.1 years ago by dsosa • 0

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1.8k

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Error when trying to fix the contigs order in the reference and vcf for FastaAlternateReferenceMaker

gatk fastaalternatereferencemaker rna-seq written 2.7 years ago by tiago211287 • 930

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Recent Replies

A: Get sequences for KEGG by EC and taxa by natasha.sernova • 2.9k
It may be helpful: https://www.biostars.org/p/71737/ https://www.biostars.org/p/55962/ https:/...
C: Display full information about taxa instead of staxids in BLASTn by h.mon ♦ 13k
staxid means Subject Taxonomy ID staxids means unique Subject Taxonomy ID(s), sepa...
C: How to add tdtomato to mouse genome for RNA seq analysis by h.mon ♦ 13k
That is pretty much about it. Just check afterwards if tdtomato is appearing in your counts files.
C: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
I added a `break` at the end of a pattern match. That should speed this up a bit, on the assumpti...
A: Matching peptides which differ by one letter? by h.mon ♦ 13k
For a problem like this one, it is unfathomable there is a python answer and not a perl answer. S...
C: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
Thanks, should post a fix shortly.
C: Matching peptides which differ by one letter? by h.mon ♦ 13k
I think you are dividing `affinity_file2` by `affinity_file1`, and OP wants the other way around.
A: Matching peptides which differ by one letter? by Alex Reynolds ♦ 23k
#!/usr/bin/env python import sys import re f1 = 'file1.txt' f2 = 'f...
A: hierarchical cluster of drug treatment after correlation analysis by Kevin Blighe ♦ 16k
Check the distribution of your data first by generating a histogram. If it looks like that typic...
C: SNP dataset and Z Score by Ram ♦ 14k
We used to use <0.01% (not more than 1 in 10,000 alleles) as a rare variant cutoff. IMO 1% is ...
A: SNP dataset and Z Score by Kevin Blighe ♦ 16k
Your questions are not a nuisance, so, do not feel bad for asking. In association studies, the u...
A: How to extract from a fasta file, all the protein sequences that have more than by ayixon • 0
Solved. Thank you very much. The perl script worked fine.

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