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Job:
Human Genomics Team Leader
ebi
ensembl
embl
genomics
4 days ago by
Ben_Ensembl
★ 2.3k
1
vote
2
replies
726
views
Job:
Scientist Position, Data Science AI/ML for Biology (JRD DS)
Data-Science
JNJ
Janssen
updated 4 days ago by
Ram
40k • written 14 months ago by
Shicheng Guo
★ 9.3k
2 results • Page
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Recent Votes
Comment: ncbi error report log for validate fastq issue
Comment: ncbi error report log for validate fastq issue
A: Bowtie2 MAPQ difference using local vs end-to-end alignment
C: Bowtie2 MAPQ difference using local vs end-to-end alignment
Answer: TPM RNA-seq data for differential expression analysis
A: Error When Installing Emboss
Answer: Subclustering of intergated cells from scRNA-seq data
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Comment: Assessing Rockhopper's output
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I used Rockhopper only for bacterial genomes assembled into circular contigs or circular scaffolds.
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There is no package of that name in CRAN or Bioconductor. Where do you have it from, so which tutorial you follow?
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thank you. This is exactly what I was looking for
Answer: Search RCSB with a list of protein names?
by
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This is not the most elegant solution, but it should work with previous suggestions. In this remote directory: http://ftp.wwpdb.org/p…
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The manual says you can split samples out at once using the `+split` plugin. So, `bcftools +split -Oz -o <PATH> file.vcf.gz` should do the …
Comment: differences between trajectories in conditions with Monocle3 or other tools
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Phate (or Monocle) doesn't do UMAP. If you have done UMAP already (using seurat) then you could use the cell barcode to UMAP cluster label …
Comment: Error: cannot open file 2 for reading From Cufflinks Version 2.2.1 When Attempti
by
Y
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I figured out how to make it work. The bams have to be comma separated not just by space: cd "${input_directory_with_associated_bam_fi…
Comment: Search RCSB with a list of protein names?
by
Joseph
• 0
Hey, this is so close to what I'm looking for - I clarified in my edit. This is a great way to batch download lots of PDBs in RCSB by their…
Comment: Search RCSB with a list of protein names?
by
Joseph
• 0
This is a really neat package, but I don't think it does exactly what I want, so I've clarified my question. This seems like it grabs a PD…
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Chris
▴ 200
Yes, thank you! I figured it out but I got an error: velocyto run10x -m Hg38_rmsk.gtf WT/outs /cellranger/reference/refdata-cellranger…
Comment: How to get the gft file to run velocyto for velocity analysis?
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bk11
★ 1.3k
You can get from here- [UCSC][1]. Just click on get output botton. [1]: https://genome.ucsc.edu/cgi-bin/hgTables?hgsid=611454127_NtvlaW…
Answer: Search RCSB with a list of protein names?
by
bk11
★ 1.3k
You can use `Bio3D` an R Package for this. [http://thegrantlab.org/bio3d_v2/tutorials/installing-bio3d][1] [http://thegrantlab.org/b…
Comment: Search RCSB with a list of protein names?
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134k
You can download various types of bulk data files from RCSB here: https://www.rcsb.org/docs/programmatic-access/file-download-services You…
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RK
• 0
Thank you so much
Comment: How to perform hypothesis testing on contingency tables and compare with the nul
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Jean-Karim Heriche
26k
So just do a regular chi-squared test as I explained above. The null hypothesis is that there are as many mutated/unmutated trinucleotides …
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