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119,630 results • Page 4 of 2393
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1
vote
2
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295
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gWidgets2RGtk2 problem for newer versions of R
data-science gWidgets2RGtk2 rstudio r
updated 9 days ago by ▴ 940 • written 9 days ago by • 0
1
vote
2
replies
331
views
spatial transcriptomic and protemomic
spatial transcriptomic
7 days ago by Synat • 0
0
votes
0
replies
253
views
Job: Bioinformatician at Max Planck Institute for plant breeding research (Cologne, Germany)
bioinformatician MPIPZ opening
9 days ago by microfuge ★ 1.9k
4
votes
2
replies
420
views
Job: Experienced Bioinformatician Seeking Opportunities in NGS Data Analysis and Pipeline Development
Pipeline-Development NGS Genomics Transcriptomics Data-Analysis
9 days ago by Bernard ▴ 30
0
votes
1
reply
261
views
Best Differential Abundance Tool for Microbiome Studies and Ensuring Cross-Study Comparability
abundance differential
9 days ago by benkosta • 0
1
vote
2
replies
469
views
Job: finding jobs in bioinformatics
jobs searching
10 days ago by Sam • 0
2
votes
1
reply
337
views
Visualize and annotate protein domains within a genomic context, given complement
complement protein genomics
updated 6 days ago by ★ 4.0k • written 10 days ago by ▴ 20
0
votes
6
replies
498
views
[ChIPSeq] Multiple Peaks at Cross Correlation Analysis
phantompeakqualtools chipseq crosscorrelation encode
8 days ago by Diren • 0
2
votes
4
replies
480
views
Batch correction
RNA-seq
10 days ago by Sakura • 0
2
votes
3
replies
551
views
Pre-pseudoalignment preprocessing
salmon
updated 10 days ago by ★ 6.9k • written 18 days ago by • 0
0
votes
4
replies
313
views
PCA in two similar conditions
RNA-seq PCA
updated 9 days ago by ★ 18k • written 10 days ago by • 0
5
votes
1
reply
263
views
[RNASeq] Excluding samples that cluster differently in PCA plot
PCA rnaseq
updated 10 days ago by 4.5k • written 10 days ago by ▴ 20
0
votes
2
replies
392
views
TCGA Methylation Beta and Gene Expression Help
ensembl expression hgnc gene-names methylation
updated 10 days ago by ▴ 660 • written 7 weeks ago by • 0
0
votes
3
replies
233
views
Would this level of base pair mismatch suggest the data is inaccurate?
accuracy data base-pair mismatch alignment
updated 10 days ago by 147k • written 10 days ago by • 0
0
votes
7
replies
516
views
BCFTOOLS: command does not work correctly. Can you help me?
bcftools
9 days ago by jhonatan.henrique • 0
0
votes
0
replies
199
views
Data sets for prostate/cervical cancer
cancer datasets databases
6 days ago by M__ ▴ 200
0
votes
4
replies
261
views
Rapid BaseQ drop in adaptor regions with UMI
adapter fastqc umi adaptor
updated 10 days ago by 20k • written 10 days ago by ▴ 140
0
votes
0
replies
291
views
Requesting help with Edge Weighted Graph Creation (Cytoscape)
Cytoscape WGCNA
10 days ago by Guntaas • 0
0
votes
2
replies
1.1k
views
RANGER-DTL ERROR: missing ')' in input tree expression line x column xx
RANGER RANGER-DTL fasttree
updated 10 days ago by • 0 • written 3.4 years ago by ▴ 40
0
votes
0
replies
134
views
Amplifying more then 6 subpools in an oligopool
wet-lab
10 days ago by gernophil ▴ 90
0
votes
5
replies
278
views
PCR Primer Design
PCR Primer
updated 10 days ago by 44k • written 10 days ago by • 0
0
votes
2
replies
236
views
Remove reference sequence from multifasta file
fasta multifasta
updated 10 days ago by 15k • written 10 days ago by • 0
0
votes
2
replies
676
views
Using Tumor Immune Dysfunction and Exclusion (TIDE)
TPM cancer r
9 days ago by JACKY ▴ 160
4
votes
7
replies
381
views
Currently recommended Oxford Nanopore data basecalling and preprocessing pipeline for de novo assembly applications
ONT assembly Nanopore preprocessing basecalling
10 days ago by Denis ▴ 310
0
votes
2
replies
196
views
GPU facility for single cell multi omics data analysis
multiomics google-colab gpu single-cell
10 days ago by KABILAN ▴ 100
0
votes
0
replies
131
views
Somatic-Sniper calls very few variants
sniper somatic
10 days ago by runfreely2 • 0
0
votes
2
replies
189
views
Overlap entries in annotation
Bedtools
updated 10 days ago by ★ 2.8k • written 10 days ago by • 0
3
votes
2
replies
277
views
Request for Bioinformatics Workstation Configuration for Bacterial Whole Genome Analysis?
Bacterial Workstation Whole genome AMR
updated 9 days ago by ★ 2.8k • written 10 days ago by ▴ 80
0
votes
0
replies
115
views
Is there a database with the mode of inheritance for diseases?
diagnostics genotyping allelotyping
10 days ago by njornet ▴ 20
0
votes
0
replies
126
views
Datasets with RNA-seq and drug sensitivity data
drug datasets sra RNA-seq sensitivity
10 days ago by octpus616 ▴ 120
0
votes
0
replies
340
views
Is it possible to convert the Hazard ratio from cox proportional hazard model into a survival function to estimate survival probability?
MachineLearning HazardRatio Cox SurvivalAnalysis SurvivalFunction
10 days ago by Yugan Gogul Muthukumar ▴ 10
3
votes
2
replies
309
views
Is there any information about the reads duplication rate and sequencing reads length?
cfDNA sequencing readduplication
10 days ago by Zeng Jingyu ▴ 80
0
votes
0
replies
102
views
Transcript_id with "-0" after "flair collapse"
flair
11 days ago by anna_shin • 0
0
votes
1
reply
287
views
HOMER annotateInteractions.pl error
annotateInteractions.pl HOMER
updated 11 days ago by • 0 • written 4 weeks ago by • 0
0
votes
0
replies
105
views
Strelka2 germline variants very different when pairing with different tumors?
germline
11 days ago by Zhenyu Zhang ★ 1.2k
0
votes
3
replies
372
views
Converting ICGC ids to TCGA format
cancer tcga icgc
updated 11 days ago by ★ 1.2k • written 5 weeks ago by • 0
0
votes
7
replies
595
views
merge my own RNA-seq data with TCGA UCSCXena data sets. and proper normalisation
Xena TCGA normalisation RNA-seq
3 days ago by theodore ▴ 90
0
votes
1
reply
304
views
How to get full list of TCGA patients with mutation data
R TCGAbiolinks TCGA
updated 11 days ago by ★ 1.2k • written 15 days ago by • 0
1
vote
7
replies
422
views
Assigning taxonomic features in CAT: incorrect species annotation?
metagenomics taxonomy CAT
updated 11 days ago by 3.8k • written 11 days ago by ▴ 110
0
votes
0
replies
117
views
Error: No sites have activity greater than filter value.
diffbind
11 days ago by kim • 0
2
votes
2
replies
228
views
Merge braker.gtf and SQANT3.gff3 file
annotation
11 days ago by anna_shin • 0
0
votes
0
replies
110
views
Manta crash during getDepthFromAlignments
manta sv
updated 11 days ago by 147k • written 11 days ago by • 0
0
votes
4
replies
279
views
Cannot access Cibersort at Stanford site-- Is server down today?
Cibersort
11 days ago by Mitchell.frederick ▴ 10
3
votes
5
replies
707
views
How to interpret ANCOM-BC results when diff is true but passed_ss is false?
differential-abundance
updated 11 days ago by 3.8k • written 14 days ago by • 0
0
votes
2
replies
230
views
Generating SVG figure by pasting XML text directly
Programming SVG Publication Figure
8 days ago by Stephan • 0
3
votes
1
reply
223
views
R studio
RStudio
updated 11 days ago by 147k • written 11 days ago by • 0
0
votes
6
replies
353
views
sample-specific celltype in integrated data . Biology or batch effect ?
single-cell seurat scRNAseq batch-effect
10 days ago by AB ▴ 360
8
votes
10
replies
567
views
Inconsistent Methylation Levels Between Pairs in WGBS Data After Moving to NovaSeq X
X WGBS NovaSeq
updated 11 days ago by 147k • written 11 days ago by ▴ 20
2
votes
0
replies
181
views
Herald: The Biostar Herald for Monday, November 11, 2024
herald
11 days ago by Biostar 3.1k
3
votes
1
reply
194
views
color specific genes in VariableFeaturePlot
ggplot2 VariableFeaturePlot Seurat
updated 11 days ago by 5.9k • written 11 days ago by ★ 1.9k
119,630 results • Page 4 of 2393
Recent Votes
Comment: Is this featureCounts output normal, and how can I process it for DESeq2 analysi
Answer: Is this featureCounts output normal, and how can I process it for DESeq2 analysi
A: Strandedness Of Homer For Motif Analysis
Comment: database of cancer and normal cell lines
Comment: database of cancer and normal cell lines
How to filter and keep longest isoform per gene in gff3 file ?
A: How To Convert Gencode Gtf Into Bed Format ?
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Recent Replies
Comment: database of cancer and normal cell lines by yueli7 ▴ 250
Hello GenoMax, Thank you so much for your great help! I really appreciated! Best, Yue
Comment: How to Handle Incorrect Clade Grouping of a Reference Genome in a Phylogenetic T by oasiswho • 0
Dear Mensur Dlakic Thank you very much for your response. I am currently working on constructing a phylogenetic tree based on mitochondrial…
Comment: Detecting genomic signatures of drug resistance breast cancer in transcriptomic by DareDevil ★ 4.3k
You can contact me biologsr[at]gmail.com
Answer: How to Handle Incorrect Clade Grouping of a Reference Genome in a Phylogenetic T by Mensur Dlakic ★ 28k
> Has anyone experienced a similar issue? I am sure many people have gotten the trees they didn't expect. Assuming you know how to do…
Comment: Is this featureCounts output normal, and how can I process it for DESeq2 analysi by Gordon Smyth ★ 7.7k
I can read 50MB files into R in a few seconds on my laptop. Is your R session very short on memory? Anyway, you can undertake a DE analysi…
Comment: Is this featureCounts output normal, and how can I process it for DESeq2 analysi by DdogBoss ▴ 20
I will give edgeR a go to see if the resulting feature counts file is easier to handle than in bash. When I try to import the current fea…
Answer: Is this featureCounts output normal, and how can I process it for DESeq2 analysi by Gordon Smyth ★ 7.7k
Yes, that is normal output. Have you considered using the simpler R-based interface: ``` library(Rsubread) library(edgeR) files <- c("samp…
Answer: Iterative clustering with silhouette score by Mensur Dlakic ★ 28k
You didn't tell us what type of clustering is used here. Specifically, how do you determine the number of clusters? With the information…
Comment: Duplicate ENSGids in the result file quant.genes.sf from Salmon by GenoMax 147k
How did you make your `salmon` index? Using the transcript file for v.46 from GENCODE? <!-- this is it -->
Comment: database of cancer and normal cell lines by GenoMax 147k
See https://www.proteinatlas.org/humanproteome/cell+line<br> https://gtexportal.org/home/aboutAdultGtex<br> http://gent2.appex.kr/gent2/<b…
Comment: Gene locus and gene ID by GenoMax 147k
`ENSG00000260958` is marked as a novel transcript based on [**HAVANA**][1] (manual) analysis. It is overlapping several other items that ar…
Comment: Gene locus and gene ID by zizigolu ★ 4.3k
Actually my question is why when IA search for `ENSG00000260958`, these three `TP53TG3GP`, `RARRES2P5` and `FGFR3P5` comes? Does this mean …
Comment: Estimate error-rate and assembly oftion for FLYE assembler by GenoMax 147k
If data has been basecalled with `dorado` using super accuracy (SUP) or high accuracy (HAC) models then use the `--nano-hq`.
Comment: Estimate error-rate and assembly oftion for FLYE assembler by Umer ▴ 130
Thank you for clerification. based on my Raw data i get error rates around 2–2.2%. Shold i use `--nano-hq` or `--nano-raw`. what do you …
Comment: Rank in rGFA files by tsnorri • 0
Thanks! I’ll check it on Monday.
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