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Answer: why there is an asterisk symbol at the end of each proteins sequences offasta fi
Error using -taxidlist blast
Error using -taxidlist blast
Answer: adding new assemblies to previously built practical haplotype graph (v2)
Comment: Single cluster spanning in different locations in UMAP in scRNAseq data
UniprotKB BLAST pipeline troubles
UniprotKB BLAST pipeline troubles
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Answer: How to add FORMAT/TAG = "." to all samples in a vcf file via bcftools?
by
Pierre Lindenbaum
160k
using vcffilterjdk https://jvarkit.readthedocs.io/en/latest/VcfFilterJdk/ ``` bcftools view in.vcf.gz |\ awk '/^#CHROM/ {printf("##FOR…
Answer: adding new assemblies to previously built practical haplotype graph (v2)
by
lcj34
▴ 400
Bruno: You can add new assemblies at any time. The vcfs are not dependent on one another. The only issue would be if you want to impute …
Comment: Haddock 2.4
by
dthorbur
★ 1.6k
You are only focusing on a single value. There are numerous descriptive statistics reported after a run. Together they describe the fit and…
Comment: Single cluster spanning in different locations in UMAP in scRNAseq data
by
ATpoint
81k
It means that there is a disagreement between UMAP and clustering algorithm, but since UMAP is mostly just visualization you could ignore i…
Comment: Ribo and RNA seq analysis
by
Jack Tierney
▴ 350
Hi Manu Ayllon, It is difficult to advise as I am unclear on the goal of your project. I will tell you what I understand and you can co…
Answer: Ribo and RNA seq analysis
by
Manu Ayllon
• 0
I got it making use of blastn, creating first a database with the RNA sequences and doing blast with the Ribo-seq sequences as query. The p…
Comment: Deeptools scale issue for plotHeatmap
by
Learner
• 0
Hi Devon, Thanks a lot for the reply. DNA methylation file has 19466838 lines while domains has 92409 lines.
Answer: why there is an asterisk symbol at the end of each proteins sequences offasta fi
by
Juke34
8.5k
It corresponds to stop codon but in theory GTF format does not have stop codon in CDS. Keep in mind that it exists stop codon reading th…
Comment: scRNAseq normalization
by
ATpoint
81k
That is an entirely different analysis and depends on the testing Framework. If you use the commonly-used Wilcox test or something like lim…
Comment: Haddock 2.4
by
Preeti
• 0
i have three different runs with haddock score of -75, -68, -61 . Which one is better among these( molecule 1 is same in all three ,only mo…
Comment: NGS/GATK pipeline returns too many variants
by
dhruti
• 0
@dodausp Did you ever find a reason for this? I am having the same problem
Comment: Troubleshooting a REGENIE sex-stratified GWAS
by
Corentin
▴ 600
Sex chromosomes are always a bit tricky to handle in associations studies. How many male cases and male controls you have for this phenoty…
Comment: Beagle Phasing and Imputation
by
Duarte Molha
▴ 240
Hi @lchart Thank you for your answer. I coded my male sample as biallelelic homozygous as i was aware of limitations for allosomes.…
Comment: error in wigToBigWig while converting mappability to bedgraph
by
Dora
▴ 10
And I also change the chrom name in the .sizes file. That works perfect. Thank you very much!
Comment: scRNAseq normalization
by
sarahmanderni
▴ 100
Thanks for the response! I also was wondering to ask if you have found the log-norm also working fine in terms of downstream analysis like …
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