User: a4appy23
a4appy23 • 10
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Posts by a4appy23
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... I'm using psmc software to create demographic history from a single genome. after running psmc i got a plot with effective population size on y axis and time in years in x axis... I'm wondering what the effective population size here is. is it the total number of common ancestors found in the genome ...
written 9 weeks ago by
a4appy23 • 10
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Comment:
C: denovo assembly using soap denovo
... Im trying to reconstruct a contig level assembly using genome A reads. i tried with k31 and k51 and chose k51 because it gave higher contigs compared to k31. but in this scenario 2641 is very low ...
written 3 months ago by
a4appy23 • 10
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... This is a basic question. I have a genome A . when I ran quast the on the genome A that is downloaded from NCBI it had N50 of 20,634,945. when i used soap denovo 2 to reconstruct the genome A with aired end reads of genome A .The contig level assembly had N50 2669 and the scaffolds had a N50 of 25 ...
written 3 months ago by
a4appy23 • 10
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... Im trying to find heterozygosity using angsd software. So while dealing with the parameter , baq: (base alignment quality)
to correct the misalignments i was wondering what is the difference between setting
baq: 1(normal baq) and baq:2 (extended baq)? ...
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... yes . but i edited it now. ...
written 9 months ago by
a4appy23 • 10
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... Hi ,
I tried to edit fastA file to fastq file using the command from this https://www.biostars.org/p/275542/#275578.
im trying to interpret the results now. used a fake qscore of 35. The seequences in the fasta file had A,C,G,T,N...
For example if the fasta file is in the format
>N33.01
...
written 9 months ago by
a4appy23 • 10
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... Hi,
I have whole genome data of few species of whales.i need to create a phylogeny tree any suggestion on how should i proceed?
...
written 10 months ago by
a4appy23 • 10
• updated
10 months ago by
Mensur Dlakic • 8.4k
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... I did an fisher exact test to investigate if DE genes are significantly overrepresented in terms of diabetes genes.
I got an p value of 0.83. other than accepting and rejecting the null hypothesis based on cut off value 0.05
how do i interpret it?. i mean what does the p-value of 0.83 mean here ...
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... im from non genetics background who started taking a course in genetics.So i was wondering what is an gene isoform switching? what happens when there is an isoform switching .can some one explain it in layman terms. ...
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... im trying to find the intron length distribution of the hg18 assembly downloaded from the table browser.the refseq file has the following columns in iti calculated gene length by txstart-txend and made a plot of the distribution..however i need to find the intron length .
"bin" "name" ...
written 17 months ago by
a4appy23 • 10
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