Tag: DESC

Genome-wide association study of musical beat synchronization demonstrates high polygenicity

Savage, P. E., Brown, S., Sakai, E. & Currie, T. E. Statistical universals reveal the structures and functions of human music. Proc. Natl Acad. Sci. USA 112, 8987–8992 (2015). CAS  PubMed  PubMed Central  Article  Google Scholar  Ravignani, A., Delgado, T. & Kirby, S. Musical evolution in the lab exhibits rhythmic…

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Separate exogenous from endogenous transcripts using Salmon RNAseq DTU

Dear friends, We are trying to use Salmon for DTU analysis. We want to separate exogenous from endogenous transcripts by following this post www.biostars.org/p/443701/ and this paper f1000research.com/articles/7-952 We are focusing on a gene called ASCL1 (endo-ASCL1). We transduced cells with lentiviral vector containing ASCL1 ORF only (Lenti-ASCL1). There should…

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r – Reversing discrete axis in ggplot doesn’t reverse data

Use geom_point instead of geom_count because you’re getting the point sizes from a column in your table, not by counting the rows. Use scale_fill_manual to use the colours that are specified in your table. Use reorder when specifying the y variable in ggplot to reverse the order. TEST_df = tribble(~CellType,~name,~value,~size,~colour,…

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Convert to use GPIO descriptors

[PATCH v2] media: m5mols: Convert to use GPIO descriptors * [PATCH v2] media: m5mols: Convert to use GPIO descriptors @ 2022-02-24 0:13 Linus Walleij 0 siblings, 0 replies; only message in thread From: Linus Walleij @ 2022-02-24 0:13 UTC (permalink / raw) To: Mauro Carvalho Chehab, linux-media Cc: Linus Walleij,…

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How to convert transcript-relative coordinates to genomic coordinates?

How to convert transcript-relative coordinates to genomic coordinates? 0 I have queried using Entrez Utilities (efetch: www.ncbi.nlm.nih.gov/books/NBK25499/) and obtained annotations for transcripts like the following: >Feature ref|NM_152486.3| 1 2557 gene gene SAMD11 gene_syn MRS gene_desc sterile alpha motif domain containing 11 db_xref GeneID:148398 db_xref HGNC:HGNC:28706 db_xref MIM:616765 How/what database should…

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Convert DNAStringSet to a list of elements in R? (Error in seq[[1]][[“seq”]] : subscript out of bounds in R)

I have a bed file which contains DNA sequences information as follow: ** track name=”194″ description=”194 methylation (sites)” color=0,60,120 useScore=1 chr1 15864 15866 FALSE 894 + chr1 534241 534243 FALSE 921 – chr1 710096 710098 FALSE 729 + chr1 714176 714178 FALSE 12 – chr1 720864 720866 FALSE 988 -…

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how to make 2d rendering on directx 11 more faster – Graphics and GPU Programming

I make an editor for own game engine and I used for 2d rendering Direct2D but I wanted to render a directx texture on window in editor, I didn’t find convenient way to convert directx texture to direct2d bitmap. I decided to make own 2d render on directx 11 and…

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Research Fellow (Computational Biology, Bioinformatics, Machine Learning)

Research Fellow (Computational Biology, Bioinformatics, Machine Learning) – Career at NTU University in Singapore. Apply for NTU University job and get your career at NTU University! Company: NTU University Job Type: Full Time Work Place: Singapore Salary: SGD 10000 / Month Job Description A Research Fellow position is available in…

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r – How to select top N values and group the rest of the remaining ones

How can I rank the first 4 group of my dataframe associated to the highest value in the count column and create a 5th group summing up the remaining groups and their associated values ? What I did so far: dummy_dataframe <- data.frame(group = c(“A”, “B”, “A”, “A”, “C”, “C”,…

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main-arm64-default][devel/RStudio] Failed for RStudio-2021.09.1+372 in build

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: ampere2.nyi.freebsd.org/data/main-arm64-default/p7539e33f88ff_s169b368a62/logs/RStudio-2021.09.1+372.log Build URL: ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=p7539e33f88ff_s169b368a62 Log: =>> Building devel/RStudio build started at Wed Dec 8…

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README

README ggmatplot is a quick and easy way of plotting the columns of two matrices or data frames against each other using ggplot2. Overview ggplot2 requires wide format data to be wrangled into long format for plotting, which can be quite cumbersome when creating simple plots. Therefore, the motivation for…

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Open multi-file AlphaFold models | ChimeraX Recipes

# # Open AlphaFold database models for proteins larger than 1400 amino acids. # These calculated in 1400 amino acid segments every 200 amino acids due to # limitations (GPU memory) of the AlphaFold software. We load and align # the segment models. This produces many clashes. # # Opening…

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Agilent-016436 Human miRNA Microarray 1.0

Upon request, a quick tutorial for processing the Agilent micro-RNA (miRNA) microarray data of GSE28955. The raw TXT files are contained in: ftp.ncbi.nlm.nih.gov/geo/series/GSE28nnn/GSE28955/suppl/GSE28955_RAW.tar Download this TAR file Unpack it [the TAR file] Unzip the txt.gz files Store these [txt files] in a directory raw/ Then, create a tab-delimited file, targets.txt,…

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Differential Gene Expression after batch correction with DESC?

Differential Gene Expression after batch correction with DESC? 0 I recently performed batch effect correction on single cell RNA-seq data with DESC. www.nature.com/articles/s41467-020-15851-3#Sec11 eleozzr.github.io/desc/ The batch corrected clustering and dimensional reduction worked well but I would like to determine differentially expressed genes between cell populations from two different batches. I…

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