Limit : all time
all time today this week this month this year
50 results • Page 1 of 1
Sort: Rank
Rank Views Votes Replies
Showing top results for tag: Python • reset
0
votes
0
replies
95
views
PyDeseq2 - InvalidIndexError
python rna-seq pandas pydeseq2 deseq2
1 day ago by tmanjonas • 0
0
votes
2
replies
234
views
Comparing GSEA mutant data to wild type
python gene GSEA R
6 hours ago by conmul • 0
2
votes
1
reply
186
views
Conda Environment Issue
conda python yaml environments dependencies
updated 15 days ago by ▴ 30 • written 15 days ago by ▴ 110
0
votes
1
reply
213
views
What are the epithelial cells subtype in esophagus tissue ?
python scanpy anndata single-cell
updated 23 days ago by 85k • written 23 days ago by ▴ 160
0
votes
0
replies
204
views
Strandedness and fetching phyloP scores
python phyloP genome
updated 27 days ago by 44k • written 27 days ago by • 0
0
votes
3
replies
321
views
How to convert CSV format to VCF using Python?
VCF CSV Python
updated 4 weeks ago by 44k • written 4 weeks ago by • 0
0
votes
1
reply
334
views
Convert CRAM to BAM in pysam
python pysam BAM CRAM
updated 6 weeks ago by 20k • written 6 weeks ago by ▴ 920
1
vote
1
reply
384
views
Gabor Wavelet Transform on DNA sequence in python
python signal-processing DNA
updated 7 weeks ago by 44k • written 8 weeks ago by ▴ 10
0
votes
1
reply
262
views
Generating a Python parsable local db from dbSNP
Python
updated 9 weeks ago by ▴ 520 • written 9 weeks ago by ▴ 90
0
votes
0
replies
237
views
News: Course: Introduction to Deep Learning
Deep-Learning Machine-Learning Python Convolutional-Neural-Network
5 weeks ago by carlopecoraro2 ★ 2.6k
0
votes
0
replies
167
views
News: Coding Courses @ Edinburgh Genomics
snakemake python R workshop linux
10 weeks ago by Kat @ EdGe ▴ 10
1
vote
3
replies
383
views
What should I use correlate/compare microbiome compositional data to other data types
R python microbiome compositional-biology
updated 10 weeks ago by ★ 2.5k • written 10 weeks ago by ▴ 50
0
votes
0
replies
117
views
News: Course: Advance your Python Skills for Life Sciences
python vPython Pythonlang
updated 10 weeks ago by 44k • written 10 weeks ago by ▴ 70
12
votes
5
replies
667
views
Forum: Books and Blogs guiding the programming practice in bioinformatic research?
R Python Programming
11 weeks ago by JustinZhang ▴ 120
0
votes
1
reply
246
views
Fetching records using Entrez
Python Pubmed Entrez
updated 11 weeks ago by 146k • written 11 weeks ago by • 0
5
votes
11
replies
1.0k
views
7 follow
why R scripts are preferred to biopython for RNA-Seq analyses?
R Python
updated 12 weeks ago by 15k • written 12 weeks ago by ▴ 90
0
votes
1
reply
244
views
How To Get Millions of Sequences from Genomic Regions Efficiently
python pandas genome
updated 12 weeks ago by 44k • written 12 weeks ago by • 0
2
votes
1
reply
465
views
LigPlot (LigPlus) Giving Different Interactions on Command Line and GUI
python protein-protein-interaction structural-bioinformatics pdb
3 months ago by Aman Vishwakarma ▴ 10
0
votes
3
replies
412
views
Trouble Submitting Forms on Duet for Protein Stability using Web scraping technique (Requests and BeautifulSoup Packages)
web-scraping web-service protein python
updated 3 months ago by 44k • written 3 months ago by ▴ 10
0
votes
0
replies
277
views
Cell Typist Providing different results between iterations
Python Single-Cell CellAnnotation CellTypist
updated 3 months ago by 44k • written 3 months ago by ▴ 110
5
votes
1
reply
428
views
First nextflow script and I'm facing alot of errors, is my approach even correct?
Conda Bash Python Groovy Nextflow
updated 3 months ago by ▴ 590 • written 3 months ago by ▴ 50
1
vote
7
replies
662
views
How do decide if a processed scRNA-seq data is read counts or UMI format ?
scanpy python single-cell anndata RNA
updated 3 months ago by 85k • written 3 months ago by ▴ 160
6
votes
5
replies
8.2k
views
9 follow
How to convert .vcf files into .csv?
vcf csv sql python vcftools
updated 3 months ago by 12k • written 7.5 years ago by • 0
2
votes
14
replies
796
views
convert list to fasta format
python
updated 3 months ago by 44k • written 3 months ago by ▴ 90
2
votes
4
replies
586
views
Mageck RRA is listing negative controls as high fold change in the gene summary
python crispr mageck
updated 3 months ago by ★ 18k • written 4 months ago by • 0
0
votes
3
replies
305
views
Mageck NEST cannot find control genes/sgRNAs
python mageck crispr-screen
updated 3 months ago by 146k • written 3 months ago by • 0
0
votes
4
replies
424
views
convert list to fasta format
python fasta
3 months ago by pinheirofabiano ▴ 90
0
votes
1
reply
247
views
How to concat multiple h5ad files into one
singlecell singlecellexperiment h5ad python anndata
updated 3 months ago by 13k • written 3 months ago by ▴ 20
0
votes
0
replies
209
views
Interpreting cNMF with 2 equivalent best ranks
python cNMF
3 months ago by yura.grabovska ▴ 600
0
votes
0
replies
264
views
Passing list of genes to celltypist
DE SingleCell CellAnnotation CellTypist Python
3 months ago by Bioinformatics_begginner ▴ 20
0
votes
0
replies
916
views
Job: Computational Biology PhD Position: Computational drug screening and synthetic lethality drug repurposing to identify novel therapeutic options for p…
python graphtheory prostate omics cancer
3 months ago by D4office • 0
0
votes
2
replies
199
views
How to install `_license` package for Python v3.8.1 in Conda environment?
python
updated 3 months ago by 44k • written 4 months ago by ▴ 100
0
votes
0
replies
486
views
Job: PhD position: Deciphering molecular mechanisms of acute kidney injury (AKI) to chronic kidney disease (CKD) transition
python ckd omics drug-development
4 months ago by D4office • 0
0
votes
5
replies
1.0k
views
Is there a way to install Python version 2 on Mac with M3 chips?
NGS Python
updated 4 months ago by ▴ 90 • written 4 months ago by ▴ 140
1
vote
0
replies
249
views
News: "Introduction to Deep Learning for Biologists" - Online Course (30 Sep - 4 Oct 2024)
Deep-Learning Machine-Learning Python CNN
updated 4 months ago by 44k • written 4 months ago by ★ 2.6k
2
votes
6
replies
670
views
Finding scRNA-seq datasets of healthy human ovaries
python GEO single-cell RNA
updated 4 months ago by 44k • written 4 months ago by ▴ 160
4
votes
6
replies
2.7k
views
6 follow
convert csv to fasta format using python
python
updated 4 months ago by 44k • written 2.4 years ago by • 0
1
vote
6
replies
906
views
Help with Biopython for Beginner
Python ORF FASTA Biopython
updated 4 months ago by • 0 • written 5 months ago by • 0
0
votes
2
replies
473
views
Job: postdoc/master's position AI ML
python Neuroscience machine-learning
updated 4 months ago by 6.8k • written 4 months ago by • 0
0
votes
0
replies
215
views
Removing inherent biomarker sensor signals from the actual sensor readings
python data noise
4 months ago by bluecipher • 0
1
vote
1
reply
388
views
Reading files from different types as H5AD
python scanpy anndata single-cell
updated 4 months ago by ★ 3.0k • written 4 months ago by ▴ 160
0
votes
0
replies
217
views
How to get the sample matrix programmatically, TCGA
R cBioPortal Python TCGA
5 months ago by pcomps49 • 0
0
votes
0
replies
169
views
Last step of metagenome analysis before visualization
metagenome python analyis
5 months ago by Ayda Ecem • 0
1
vote
3
replies
620
views
Tool: Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes Decimal offtopic Degrees python
updated 5 months ago by 44k • written 5 months ago by ▴ 30
0
votes
4
replies
631
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart ensembl wheat python pybiomart
5 months ago by Luqman • 0
2
votes
2
replies
597
views
Cannot install bwa-mem2 via conda
conda mamba python
updated 5 months ago by 44k • written 5 months ago by • 0
0
votes
0
replies
183
views
Empty kernel in SEACells model
single-cell scanpy seacells python anndata
5 months ago by JACKY ▴ 160
3
votes
4
replies
614
views
Truncated metadata file report from ENA Portal API
ena python
5 months ago by Giulia • 0
0
votes
0
replies
246
views
News: Online course: Introduction to Deep Learning
Python Deep-Learning Convolutional-Neural-Network Machine-Learning
updated 5 months ago by 44k • written 5 months ago by ★ 2.6k
0
votes
9
replies
1.2k
views
Applying the metacell2 algorithm using python
python single-cell scanpy metacell2
updated 5 months ago by ★ 2.1k • written 5 months ago by ▴ 160
50 results • Page 1 of 1
Recent Votes
Comment: Finding Differential Phosphosites in TMT Phosphoproteomics Data
Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How?
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
A: How do I ask a question on Biostars?
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
Recent Locations • All
United Kingdom, just now
Hong Kong, 6 minutes ago
India, 12 minutes ago
United Kingdom, 25 minutes ago
Norway, 25 minutes ago
Germany, 25 minutes ago
Bologna, 27 minutes ago
Recent Awards • All
Popular Question to wangziwei0010 ▴ 30
Popular Question to xiaoleiusc ▴ 140
Popular Question to odi ▴ 10
Popular Question to Alewa ▴ 170
Popular Question to Ezequiel ▴ 10
Popular Question to pablo ▴ 310
Popular Question to Jichen Wen ▴ 30
Recent Replies
Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How? by ATpoint 85k
> But How could I know if the difference comes from sample instead of sequencing runs or cohort-driven batch effect? You cannot. It's pe…
Comment: Comparing GSEA mutant data to wild type by conmul • 0
Sorry that it was unclear in the post. The data is all CRISPR gene effect scores from DepMap. The 'significant genes' as mentioned in the p…
Comment: How to determine whether it is 10x data by king • 0
Thank you for your answer, it's very inspiring.
Comment: Inquiry about depth of coverage and copy number variation by Chen • 0
Thanks Pierre, I was actually thinking about the duplicate PCR reads and didn't explain it properly. I have found a post mentioning that qu…
Comment: Can a read be aligned more than once? by GenoMax 146k
Yes a read can be aligned more than once (I don't specifically know about gam/gaf). It would be called a "multi-mapping" read. You could im…
Comment: Statistical test to be used for dataset by allingt • 0
The choice of test depends on the types of variables involved and the hypothesis you have. But most importantly on the question you want am…
Comment: dittoHeatmap; adding column labels on the heatmap by jared.andrews07 ★ 18k
I'd consider making a [block annotation](https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation…
Comment: Comparing GSEA mutant data to wild type by allingt • 0
What do you mean by "significant gene"? How did you perform GSEA and on how did you rank your genes for it? From guesswork I might initiall…
Comment: Genes of Interest in a Multi-Tissue Analysis by allingt • 0
The DESeq2 manual tells us that the object class of vst() output is a subclass of RangedSummarizedExperiment. I suspect the methods applica…
Comment: WGCNA: Why are my brown, yellow, and other modules not visible in the gene dendr by allingt • 0
Did you perform blockwise module detection by any chance? Are your results object's contents sorted in blocks?
Comment: Why does WGCNA use weighted correlation instead of Pearson correlation? by allingt • 0
The WGCNA implementation by Langfelder and Horvath provides various correlation methods to create the initial correlation matrix. I don't t…
Comment: dittoHeatmap; adding column labels on the heatmap by Varun Gupta ★ 1.3k
any idea, how can I display the labels Pre and POst on the top of the heatmap? I am looking at complexheatmap package as to how they displa…
Comment: How can I determine the p-value of genes within each identified module in WGCNA? by allingt • 0
What p-value do you mean? When and how did you calculate it?
Answer: What is a genomic range that would almost always get decent WGS coverage but is by i.sudbery 20k
What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
Answer: Using NumReads column of quants.genes.sf file to build DESeq2 input by i.sudbery 20k
One of the improvements that the using the `salmon` -> `tximport` -> `DESeq2` pipeline, over just a `counts`->`DESeq2` pipeline is the abil…
Traffic: 1458 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6