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Bulk quality interleaving with bbmap reformat command

reformat loop bbduk bbmap bash written 10 weeks ago by infenit101 • 10 • updated 6 days ago by ross_whetten • 10

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723

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Help re-formatting an Interproscan file

interproscan noob file reformat written 2.8 years ago by Biogeek • 340

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1.5k

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Perl script for reformatting a plink/seq output file

perl plink/seq allele genotype reformat written 3.4 years ago by plink_9857 • 40

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1.6k

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Taking genotypes out of a vcf file

vcf reformat written 3.6 years ago by Jautis • 270 • updated 3.6 years ago by Matt Shirley ♦ 8.8k

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Recent Replies

C: HMM and NGS mapping by Devon Ryan ♦ 88k
Do you have access to the homologous sequences themselves? It'd be simple enough to just align to...
A: Is There Is Tool For Variable Tandem Repeats Finding? by Sukhdeep Singh ♦ 9.6k
Also, check out [MISA][1] Beier S, Thiel T, Münch T, Scholz U, Mascher M (2017) MISA-web: a web ...
C: Extraction of aligned read using samtools by ATpoint ♦ 13k
Please use the search function, this question has been asked very often before. File size is not ...
C: Recurrent mutation query by ATpoint ♦ 13k
Does your analysis has any biological relevance, so any analysis on the mutation that further cha...
C: Many 0 in ped file converted from vcf genomic data by ATpoint ♦ 13k
Please use the formatting bar (`10101`) to highlight code and data examples.
C: Number of discovered genes in genome does not correspond with published annotati by P16226 • 0
Thank you very much! You are right!
C: MyCC not producing any bins by Kevin Blighe ♦ 37k
...and what does that log file state? Look for warning and/or error messages.
A: MyCC not producing any bins by suran.nambisan • 0
Hi All I have used MyCC.py but am not able to get any output except the log file. MyCC.py mg_s...
A: Filtering number of markers after segmentation using DNAcopy by Eric T. • 2.3k
Is this for research or for clinical diagnostics? Did the source data come from array CGH, SNP ar...
A: CNVkit: Dealing with noisy tumor samples by Eric T. • 2.3k
Hi Fil, I think we've been in contact already. My suggestions so far are: - Use `metrics` on the...
A: CNVkit Heatmap samples clustering by Eric T. • 2.3k
CNVkit plots the samples in the order that you list the .cns files on the command. It doesn't do ...
A: Error in CNV Calling with Annotation by Eric T. • 2.3k
Thanks for reporting, I've filed this issue in the project's GitHub repo: https://github.com/etal...

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