User: Adrian Pelin
Adrian Pelin • 2.3k
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Comparative and Population Genomics of Microsporidia. Comparative and Functional Genomics of Cryptomycotans.
Posts by Adrian Pelin
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... OK I did that. I am logging in through google and it seems that even after I changed the email, I still need to login through the old email. ...
written 7 weeks ago by
Adrian Pelin • 2.3k
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... Hello, really liking the tool so far. What base level is the log in logFC? Do you suggest log10 or log2? Thanks, A ...
written 7 weeks ago by
Adrian Pelin • 2.3k
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... Hey everyone,
I wanted some advice on the way I am planning on analyzing my samples in terms of if it's done properly and if statistically sound.
My biological question is: What is common between human and mouse cancer cell lines in how they deal with Vaccinia infection in terms of transcriptiona ...
written 8 weeks ago by
Adrian Pelin • 2.3k
• updated
16 days ago by
swbarnes2 ♦ 7.0k
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... If you can generate a translational alignment for each of your suspected orthologous group, you can use codeml ...
written 9 weeks ago by
Adrian Pelin • 2.3k
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... That makes a lot of sense! So if I just download the "primary_assembly" I would have a smaller decompressed file size only at the expense of haplotypes, is that a fair prediction? Thanks ...
written 10 weeks ago by
Adrian Pelin • 2.3k
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... Hello,
When I download release 95 repeats soft masked file "ftp://ftp.ensembl.org/pub/release-95/fasta/homo_sapiens/dna/Homo_sapiens.GRCh38.dna_sm.toplevel.fa.gz" it is ~1 Gb, however if I decompress it, it becomes 54 Gb.
This is curious as the same soft repeat masked mouse genome decompressed is ...
written 10 weeks ago by
Adrian Pelin • 2.3k
• updated
10 weeks ago by
Emily_Ensembl ♦ 19k
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... I think what you are asking for is what other programs aside from the ones you mentioned can do the same thing? ...
written 11 weeks ago by
Adrian Pelin • 2.3k
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188
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... Makes a lot of sense, thanks. So I just did "`cat Homo_sapiens.GRCh38.95.gtf | grep "gene_biotype \"protein_coding\"" > Homo_sapiens.GRCh38.95.protein_coding.gtf`", is that ok in terms of creating a new gtf file? ...
written 11 weeks ago by
Adrian Pelin • 2.3k
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... Hello,
To put it simply, I am doing differential expression analysis on human RNA-seq data and I want to focus my analysis of genes that are:
1) Protein coding, so no SNOR or MIR
2) Genes with a given name (I see genes like AC006064.5 and I am not sure what they are)
I am hoping that by refocusing ...
written 11 weeks ago by
Adrian Pelin • 2.3k
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189
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... Oh that's simple! And "positions = positions.subList(15,positions.size()-45);" after "else" indicating negative strand? ...
written 3 months ago by
Adrian Pelin • 2.3k
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For A: Biostars 3.0 is now under testing. It has groups, charms and other interesting f
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For Recombination detection from command line?
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For MrBayes: Implementing the LG model
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For Recombination detection from command line?
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11 months ago,
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For Loss of Heterozygosity from VCF file in non-model organisms
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11 months ago,
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For Recombination detection from command line?
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11 months ago,
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For MrBayes: Implementing the LG model
Teacher
11 months ago,
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For Recombination detection from command line?
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14 months ago,
created a question with more than 1,000 views.
For Recombination detection from command line?
Teacher
14 months ago,
created an answer with at least 3 up-votes.
For C: Demultiplexing fastq files. Undocumented Illumina feature.
Popular Question
14 months ago,
created a question with more than 1,000 views.
For Loss of Heterozygosity from VCF file in non-model organisms
Popular Question
14 months ago,
created a question with more than 1,000 views.
For Recombination detection from command line?
Great Question
23 months ago,
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For MrBayes: Implementing the LG model
Great Question
23 months ago,
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For Unexpected outcome: Gene Enrichment using Fisher's Test
Appreciated
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For A: Biostars 3.0 is now under testing. It has groups, charms and other interesting f
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