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122,013 results • Page 597 of 2441
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1
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3
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3.3k
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zsh: exec format error: bigWigToWig
bigwig wig bed
updated 4.2 years ago by 154k • written 4.2 years ago by • 0
1
vote
0
replies
1.9k
views
Job: Genomics Data Scientist
Data Genomics Scientist
4.2 years ago by BerkeleyLab ▴ 70
0
votes
0
replies
1.0k
views
Job: Staff Data Scientist
date Scientist
4.2 years ago by BerkeleyLab ▴ 70
7
votes
6
replies
4.6k
views
Variant filtration software
exome
updated 4.2 years ago by 3.3k • written 4.9 years ago by ▴ 100
6
votes
4
replies
2.6k
views
Why do I get a big log fold change but small mean change in b value when plotting differential methylation?
differential volcano methylation
updated 4.2 years ago by ★ 8.3k • written 4.2 years ago by • 0
16
votes
5
replies
2.5k
views
Flipping a DNA sequence (not reverse complementing) using command line/samtools?
contigs scaffolds bionano Sequencing
updated 4.2 years ago by 154k • written 4.2 years ago by ▴ 80
1
vote
5
replies
2.6k
views
same padj for all the genes after DEseq analysis
NGS DEGs DESeq2 RNA-seq padj
updated 4.2 years ago by 9.0k • written 4.2 years ago by ▴ 30
1
vote
9
replies
3.4k
views
How to consider batch effect and multiple variable to identify differential gene expressions for a given Phenotype in DESeq2
DESeq2
4.2 years ago by pierre • 0
1
vote
1
reply
1.3k
views
Parsing snp result
SNP
updated 4.2 years ago by 45k • written 4.5 years ago by ▴ 20
5
votes
3
replies
1.6k
views
My bioinformatics story
QuantSeq DE EdgeR
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 60
1
vote
2
replies
1.3k
views
R script for offspring GO terms
multiple script terms GO
4.2 years ago by margot.27.muller ▴ 30
0
votes
3
replies
2.3k
views
[STAR] How to clear memory after lost --genomeLoad
STAR memory
4.2 years ago by mathieu.bahin ▴ 90
2
votes
4
replies
2.1k
views
How to split big .faa file into smaller .faa files
faa proteomes
updated 4.2 years ago by 9.3k • written 4.2 years ago by • 0
2
votes
5
replies
3.5k
views
MAKER genome annotation error with SNAP ab initio prediction
SNAP annotation genome MAKER
updated 4.2 years ago by 8.9k • written 4.2 years ago by ▴ 120
0
votes
0
replies
1.1k
views
Job: Bioinformatician at Max Planck Institute for plant breeding research (Cologne, Germany)
bioinformatician
updated 2.3 years ago by 45k • written 4.2 years ago by ★ 2.0k
0
votes
1
reply
1.2k
views
normalization two different datasets tcga vs gtex
tcga gtex normalization
updated 4.2 years ago by 22k • written 4.2 years ago by • 0
4
votes
2
replies
1.9k
views
Filtering MSA by similiarity to a consensus sequence/motif
biopython motif multiple alignment MSA python sequence search
updated 4.2 years ago by 22k • written 4.2 years ago by ▴ 70
0
votes
1
reply
1.3k
views
PopGenome - VCF, fasta, GTF and codons still missing
PopGenome VCF
updated 4.2 years ago by • 0 • written 4.6 years ago by • 0
3
votes
2
replies
1.2k
views
How can I add KEGG functional categories to whole genome alignments?
alignment annotation technical
4.2 years ago by Ssri • 0
11
votes
21
replies
13k
views
6 follow
How to properly combine two bam files of a paired-end data
sequencing Paired-end
updated 4.2 years ago by • 0 • written 9.0 years ago by ▴ 180
6
votes
17
replies
4.0k
views
How to trim a GFF3 file based on specific coordinates?
Annotations GFF3
updated 4.2 years ago by 13k • written 4.2 years ago by ▴ 100
1
vote
4
replies
2.5k
views
Estimating sequencing depth or mean reads per cell
sc-rna
updated 4.2 years ago by 89k • written 4.2 years ago by ▴ 10
1
vote
5
replies
6.6k
views
6 follow
A problem with MEGA-X tool for select the columns of nucleotides and edit them
software error alignment sequence gene
updated 4.2 years ago by • 0 • written 7.0 years ago by ▴ 10
0
votes
1
reply
1.1k
views
How can i get sequences from a big list of accession number from NCBI?
gene NCBI Biopython
updated 4.2 years ago by 154k • written 4.2 years ago by • 0
0
votes
0
replies
658
views
How to search for species with certain function or pathway in the annotated genome?
database genome species
4.2 years ago by kelsdeaton • 0
4
votes
2
replies
4.0k
views
How to convert plink data from 38th assembly to 37
assembly SNP plink liftOver genome
updated 4.1 years ago by ▴ 40 • written 4.6 years ago by ▴ 270
0
votes
0
replies
609
views
assessing relative contribution of samples/ organs towards a diseases in multi-tissue RNAseq
RNAseq
4.2 years ago by cwwong13 ▴ 40
0
votes
0
replies
635
views
Power calculation for microarray data
statistical_power microarray
4.2 years ago by Gene_MMP8 ▴ 240
0
votes
0
replies
909
views
KING struggle: Relatedness
king relatedness
4.2 years ago by German.M.Demidov ★ 3.0k
0
votes
4
replies
3.8k
views
How to colour points in cnetplot of clustprofiler?
clusterprofiler cnetplot R
updated 2.6 years ago by • 0 • written 4.2 years ago by ▴ 20
1
vote
3
replies
1.4k
views
extracting a gene from a gmt file
gmt pathway
updated 2.9 years ago by 45k • written 4.2 years ago by ★ 1.4k
0
votes
5
replies
2.0k
views
how to calculate positive and negative for a given protein sequence
proteomics
updated 4.2 years ago by 22k • written 4.2 years ago by ▴ 920
0
votes
0
replies
395
views
a specific transcript sequence from transcriptome mapped RNA seq
RNA-seq
4.2 years ago by zoro • 0
0
votes
0
replies
1.6k
views
Job: Post-doctoral Fellowship in Diabetes, Harvard Medical School
ChIP-seq single-cell postdoc
updated 2.6 years ago by 45k • written 4.2 years ago by • 0
0
votes
2
replies
1.2k
views
STAR Genome Indexing
sjdboverhang index star
updated 4.2 years ago by 89k • written 4.2 years ago by • 0
1
vote
4
replies
2.0k
views
is local ancestry inference typically always run w/ array genotypes instead of imputed genotypes?
ancestry
updated 4.2 years ago by 4.8k • written 4.2 years ago by ▴ 900
2
votes
2
replies
1.4k
views
Center or fix a sample at 0 on PC1 in PCA plot
Bulk RNA-Seq PCA
updated 4.2 years ago by ★ 1.7k • written 4.2 years ago by • 0
0
votes
0
replies
696
views
Introgression analyses
introgression Dsuite analyses
4.2 years ago by gubrins ▴ 350
0
votes
0
replies
1.1k
views
Job: Scientific Officer: Human genomics and translational data (ELIXIR/EMBL-EBI, Cambridge, UK)
human-genomics
updated 2.6 years ago by 45k • written 4.2 years ago by ▴ 470
0
votes
0
replies
1.1k
views
Job: Programme Manager: Human genomics and translational data (ELIXIR/EMBL-EBI, Cambridge, UK)
Cambridge human EBI genomics
4.2 years ago by Erin Haskell ▴ 470
0
votes
0
replies
807
views
Differential expression analysis of TCGA data based on tumor staging
analysis DEG TCGA
4.2 years ago by txtbookir ▴ 30
1
vote
4
replies
1.8k
views
Extract reads used for contigs assembly
assembly sequencing RNA-Seq
updated 4.2 years ago by 21k • written 6.6 years ago by • 0
0
votes
0
replies
995
views
Plotting PCA chart using biopython
python matplotlib biopython
updated 4.2 years ago by 45k • written 4.2 years ago by • 0
1
vote
4
replies
2.5k
views
How to retrieve KO IDs for a list of genes?
KEGG database
updated 4.1 years ago by ★ 1.7k • written 4.2 years ago by ▴ 40
0
votes
0
replies
797
views
How to convert .mol files to cdx?
cdx mol chemdraw
updated 2.3 years ago by 45k • written 4.2 years ago by • 0
2
votes
4
replies
2.1k
views
What does .bim .bed .fam stands for?
plink fam bim bed
updated 4.1 years ago by ★ 1.7k • written 4.2 years ago by • 0
3
votes
4
replies
1.8k
views
Chipseq visualization how to draw the figure
peaks Chipseq
4.2 years ago by Binghong ▴ 20
1
vote
0
replies
847
views
KEGG pathway draw
KEGG transcriptome RNAseq
4.2 years ago by najibveto ▴ 130
1
vote
1
reply
1.2k
views
So many variants detected.
gatk4 variants
4.2 years ago by Mehmet ▴ 820
0
votes
0
replies
728
views
How to generate feature Data(fData)
Cicero scATAC-seq
4.2 years ago by bill • 0
122,013 results • Page 597 of 2441
Recent Votes
A: Bam And Indexed Bam Files
Answer: How to create a phylogenetic tree from 30 VCF files
Comment: Reading AD and other genotype information from the VCF file
Answer: 1 vs 1 DEG analysis in scrna seq data
Comment: installation of package ‘DESeq2’ had non-zero exit status
Answer: Recommendations for 200 SNP markers genotyping
Comment: Reasonable number of SNPs in a bacterial genome.
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Recent Replies
Answer: 1 vs 1 DEG analysis in scrna seq data by ATpoint 89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome. by michael.ante ★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by lieven.sterck 16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Ram 45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by ATpoint 89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
Comment: Pseudogene - scarce info by ATpoint 89k
This reminds me strongly on my "masters" courses (doesn't deserve that name tbf). "Here is some poorly-described project with little to no …
Answer: scVI vs Harmony, which is better for cell type based clustering in brain tissue? by ATpoint 89k
There is no "better" is my experience. It always depends on the dataset. Try both and integrate your biological knowledge to decide which m…
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
I just wrote that I misunderstood your initial question.
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
What exactly did I not get?
Comment: Interpreting genomic features distribution for CUT&RUN peaks by rfran010 ★ 1.7k
If I understand correctly, you see increased signal at TSS sites compared to control (taller peaks in browser). However, 92% of the 450 siS…
Comment: combine VCF from diploid reference/haplotypes for the same sample by cmdcolin ★ 4.3k
this question is a little similar to your previous question (https://www.biostars.org/p/9614638/). just as added info, here is a tool calle…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by aj123 ▴ 130
As mentioned above, I just got the raw fastq files from the ftp site listed.
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