User: Genetics

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Genetics1.5k
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Posts by Genetics

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Comment: C: Potential post-doc PI giving exam as part of hiring process
... This is a postdoc position in a 15-25th ranked medical school in the US. ...
written 18 days ago by Genetics1.5k
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Forum: Potential post-doc PI giving exam as part of hiring process
... I will be graduating with a PhD from a US institution in Bioinformatics. I have already published 10+ papers in peer reviewed journals. I was interviewed by one PI who went over my CV, cover letter and then interviewed me for 40 minutes. Now she is giving me "exam" asking me to read some papers and ...
postdoc forum job written 18 days ago by Genetics1.5k • updated 18 days ago by Mensur Dlakic2.1k
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How to find virus sequence with no accession information?
... I am trying to retrieve the genomic sequence of HEV71 strain VR1432 used in this study (https://www.sciencedirect.com/science/article/pii/S1074761317302224?via%3Dihub), but could not find it. I would really appreciate if someone could guide me through the appropriate resources/link. Thanks ...
genome hev71 written 5 months ago by Genetics1.5k • updated 5 months ago by genomax74k
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Comment: C: How do I find out the adaptor sequences for SRA data?
... Thank you! Not sure if I can use BBMAP if it's single ends though. ...
written 5 months ago by Genetics1.5k
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How do I find out the adaptor sequences for SRA data?
... I would like to analyze some small RNA data from NCBI (eg. https://www.ncbi.nlm.nih.gov/sra/SRR5593145), but I am not sure where I can find the adaptor sequences for trimming. Can anyone please suggest. ...
sra adaptor written 5 months ago by Genetics1.5k • updated 10 weeks ago by hermidalc0
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Submitting R package in Bioconductor with Plink and vcftools Dependencies
... Hi All, I have written a program to analyze genotype SNP data in R and wanted to submit it as a bioconductor package. However, this package will be using Plink and vcftools and I was wondering if it is possible to submit it with such dependencies. Can someone please guide me though what I need to do ...
R bioconductor written 7 months ago by Genetics1.5k
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Comment: C: How can I analyze this data in Deseq?
... @Kevin Blighe Thanks Kevin for your answer. Yes, I wanted to look for miRNA-like reads with differential expression between samples. I have seen some papers using DESeq for these reads and wanted to give it a try. ...
written 8 months ago by Genetics1.5k
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Comment: C: How can I analyze this data in Deseq?
... This is smallRNA seq data. ...
written 8 months ago by Genetics1.5k
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How can I analyze this data in Deseq?
... I have my data called `count.mat`. count.mat <- structure(list(Sample_1 = c(2968, 1701, 272, 249, 186, 1598, 98, 9, 563, 1003, 278, 242, 137, 625, 614, 494, 681, 475, 3, 89), Sample_2 = c(2057, 1237, 339, 688, 289, 1354, 265, 17, 402, 793, 343, 267, 389, 477, 838, 663, 741 ...
rnaseq R deseq2 deseq written 8 months ago by Genetics1.5k
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Comment: C: Extract coverage from each nucleotide position of a genome in a bam file
... Thanks, does this also separate based on strand? Is there a way to sort the output according to bed file's chromosome order. My alignments in bam file are in different chromosomal order (eg. Ch16, Ch15, Ch14...Ch1). ...
written 8 months ago by Genetics1.5k

Latest awards to Genetics

Popular Question 12 days ago, created a question with more than 1,000 views. For Methods to correct for population stratification
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Great Question 9 weeks ago, created a question with more than 5,000 views. For R programming, concatenate or combine all the column contents
Popular Question 9 weeks ago, created a question with more than 1,000 views. For Complete Genomics data analysis, pipeline version and batch effect
Popular Question 9 weeks ago, created a question with more than 1,000 views. For FLT3 genes in TCGA in AML
Epic Question 9 weeks ago, created a question with more than 10,000 views. For R programming, concatenate or combine all the column contents
Popular Question 9 weeks ago, created a question with more than 1,000 views. For Methods to correct for population stratification
Popular Question 11 weeks ago, created a question with more than 1,000 views. For Methods to correct for population stratification
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Popular Question 5 months ago, created a question with more than 1,000 views. For Complete Genomics data analysis, pipeline version and batch effect
Popular Question 5 months ago, created a question with more than 1,000 views. For Complete Genomics data analysis, pipeline version and batch effect
Popular Question 5 months ago, created a question with more than 1,000 views. For FLT3 genes in TCGA in AML

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