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Recent Replies
Comment: Where to find old version of GATK best practice
by
GenoMax
142k
You could try and look up a snapshot of the page(s) - https://web.archive.org/
Which specific best practice are you referring to?
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
you could run blast or any other aligner to get the coordinate(s) of your fasta on a reference genome.
Answer: Running STRUCTURE from command line
by
Arthur
•
0
If it cans help,
I got the same error message :
There were errors in the input file (listed above). According to
"mainparams" the inp…
Comment: CreateSeuratObject taking very long
by
Nitin Narwade
★
1.6k
I am not sure whether it will speedup the conversion but you can give it a try.
convert your dataframe into a sparse matrix before creatin…
Comment: Practical Haplotype Graph v2 not finding correct paths
by
pjb39
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210
The timing for your question is excellent. The fix was released yesterday.
Comment: vcf phasing
by
WouterDeCoster
47k
> I observed that it doesn't phase genotypes labeled as 0/0
How could such a genotype even be phased?
Comment: Super ehancers
by
Oburah
•
0
Well-noted however just wondering what you me by GFF being shorter. Thank you![See the screeshot snap of the gff file][1]
[1]: /media/i…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴
50
I know illumina will only give me high-quality contigs.
the samples which are to be sequenced with Long_Short read sequence will be used as…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴
50
Hi, Thank you for a detailed responce.
Let me add some more informations.
Long-Read is ~75X coverage.
Short-Read is ~100X coverage.
**For…
Comment: Pruning Phylogenetic Trees and Bootstrap Values
by
Klaus S
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160
The best is to prune the tree and also the bootstrap trees and afterwards re-assign the bootstrap values to the tree. The bootstrap values …
Comment: What is the amount of sequencing data produced annually?
by
Mohamed
•
0
Here's a more neat version of the plot generated while writing my dissertation:
![enter image description here][1]
[1]: https://raw.gi…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
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130
what a pity...
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
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20
Yes, I can. But there are only two factors that affect my data PCA distribution: groups and donor. And the rest is regarded as residual.
…
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
colindaven
6.4k
Please delete this as it has nothing to do with the topic of this forum, bioinformatics. Thanks
Comment: Add stats to the plot
by
marco.barr
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130
if don't work try binding the stats without group.
stat_data4 <- data4.ts %>%
ungroup() %>%
t.test(data = ., value ~ Cond…
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