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Showing: best practices • reset

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addressing software versions

software error gatk best practices written 12 months ago by prasundutta87 • 300

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Determining the subjects to use after obtaining a PC plot of population substructure

gwas population stratification best practices written 19 months ago by Sheila • 280

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Forum: What are your "model" examples for bioinformatics programming?

github coding forum rna-seq best practices written 3.6 years ago by Dan D ♦ 6.7k • updated 3.6 years ago by Pierre Lindenbaum ♦ 116k

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Recent Replies

C: MyCC not producing any output files by Kevin Blighe ♦ 37k
As per here: https://www.biostars.org/p/296479/#364443 Did you look through the log file? What d...
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...
C: how to run mscore in bash? by cpad0112 ♦ 11k
input: $ ls resFileU.fasta resFileXXX.fasta resFileYYYYYY.fasta U.afa XXX.afa YYYYYY...
C: Can HISAT2 be invoked in bash shell, and can it be fed variables or names with w by cpad0112 ♦ 11k
try: $ ls seqrunID_1.fastq seqrunID_2.fastq $ for i in *1.fastq; do echo his...
A: TCGA and miRNA by fernardo • 110
You can try to download miRNA and other types of TCGA data from this repository: http://firebro...
C: TCGA and miRNA by genomax ♦ 62k
Try [LinkedOmics][1] and other TCGA data portals. [1]: http://linkedomics.org/
C: samtools filter proper paired alignment by mynameliuxiang • 0
thank you, i got it. I mistook about supplement alignment and second alignment. your post is ver...

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