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121,919 results • Page 70 of 2439
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1
vote
8
replies
1.5k
views
cellranger count error:
cellranger
12 months ago by CRISPYCC • 0
0
votes
1
reply
736
views
Integration of paired and single-end SRA
Paired-end Single-end VCF Resequencing
updated 12 months ago by 20k • written 12 months ago by ▴ 300
3
votes
1
reply
867
views
High inconsistency between edgeR and DESeq2
log-ratio edgeR GLM DESeq2
updated 12 months ago by ★ 3.1k • written 12 months ago by ▴ 10
0
votes
0
replies
405
views
how to make a recombination map using a family of a diploid bee "mom" and 5 haploid "sons"
sequencing recombination-map
updated 12 months ago by 45k • written 12 months ago by • 0
2
votes
0
replies
679
views
Job: Assistant, Associate, or Full Project Scientist in Cell & Developmental Biology UC San Diego
Biology Academia UCSD
12 months ago by UCSDBioSci ▴ 30
6
votes
3
replies
1.3k
views
Snakemake - Missing output files
Snakemake
updated 12 months ago by 45k • written 12 months ago by ▴ 60
0
votes
6
replies
1.2k
views
Best practice for gene ontology/pathway/geneset enrichment in 10x data
R Seurat scRNA
updated 12 months ago by ★ 19k • written 12 months ago by ▴ 820
0
votes
1
reply
1.7k
views
Plink HWE QC question
HWE Plink p-value
updated 12 months ago by ★ 3.1k • written 12 months ago by ▴ 10
0
votes
0
replies
441
views
Can non-integer data be used as input for Monocle3?
pseudotime scRNAseq trajectory-analysis Monocle3
updated 12 months ago by 45k • written 12 months ago by ▴ 10
2
votes
2
replies
663
views
multiple sequence alignmet
MSA
updated 12 months ago by ★ 30k • written 12 months ago by ▴ 40
3
votes
4
replies
1.1k
views
Different result by bowtie2
Bowtie2
updated 12 months ago by 153k • written 12 months ago by ▴ 10
0
votes
0
replies
398
views
Strand inconsistency between Long read tool and minimap2?
minimap2
12 months ago by shinyjj ▴ 60
0
votes
1
reply
2.1k
views
Problems with using Phobius
Phobius fasta sequence
updated 12 months ago by 45k • written 5.7 years ago by • 0
0
votes
5
replies
1.4k
views
Some questions about motif enrichment in Homer
motif-enrichment methylation DNA
updated 9 months ago by ▴ 20 • written 12 months ago by ▴ 20
0
votes
1
reply
541
views
Genomics Features Extraction (Promoter, 5'UTR, 3'UTR, Intergenic, exnoic, intronic etc)
genomics biology
updated 12 months ago by 45k • written 12 months ago by ▴ 10
0
votes
0
replies
345
views
Cuffcompare annotation and class code
RNA-seq cuffcompare
12 months ago by ZZOYEA ▴ 20
0
votes
0
replies
351
views
Analyzing multiple microRNA sequencing GEO datasets at the same time
geo-database RNA-seq metavolcano microRNA
updated 12 months ago by 45k • written 12 months ago by • 0
2
votes
1
reply
762
views
How can you determine the mutation rate of mitochondrial DNA for your (Grasshopper) species?
pacBio numts mtDNA Genomics
updated 12 months ago by 20k • written 12 months ago by ▴ 40
0
votes
1
reply
898
views
Tandem Mass Tag (TMT) proteomics data analysis
tmt tandem-mass-tag proteomics
updated 12 months ago by 45k • written 3.6 years ago by • 0
1
vote
1
reply
543
views
Conflict packages R
R
updated 12 months ago by 45k • written 12 months ago by ▴ 180
1
vote
4
replies
2.8k
views
Trimmomatic or Cutadapt not Trimming my Adapters even though I see them clearly in the Fastq-File
rna-seq cutadapt trimmomatic
updated 12 months ago by 20k • written 12 months ago by • 0
1
vote
6
replies
1.4k
views
Understanding bedtools coverage for datasets with in-dels.
ONT bedtools mapping reads coverage
12 months ago by Shakunthala Natarajan • 0
1
vote
4
replies
1.7k
views
6 follow
De novo sequencing?
De-novo-sequencing
updated 12 months ago by 45k • written 7.8 years ago by ★ 1.2k
6
votes
10
replies
2.6k
views
Find all sequences with adapters without trimming them off
cutadapt fastq
updated 12 months ago by 20k • written 12 months ago by ▴ 10
10
votes
4
replies
1.6k
views
Forum: Awesome awesomeness bioinformatics
bioinformatics Awesome
12 months ago by Juke34 9.3k
0
votes
0
replies
380
views
Pangenome Construction
pangenome chromosome
12 months ago by bioinfo223 ▴ 10
0
votes
0
replies
380
views
Plotting admixture output with circular barplot using membercoeff.circos
bitev2 membercoeff admixture
12 months ago by PKW ▴ 110
0
votes
1
reply
1.1k
views
STAR aligner STAR: bgzf.c:158: bgzf_open: Assertion `compressBound(BGZF_BLOCK_SIZE) < BGZF_MAX_BLOCK_SIZE' failed.
STAR aligner bgzf
updated 12 months ago by 45k • written 12 months ago by • 0
0
votes
1
reply
775
views
Convert CRAM to BAM in pysam
python pysam BAM CRAM
updated 12 months ago by 20k • written 12 months ago by ▴ 990
3
votes
12
replies
2.5k
views
comparison between a selected genes of a new strain and the same genes of the reference genome
strain genome pipeline
12 months ago by avinci1 ▴ 20
0
votes
0
replies
307
views
Compensation for SSC-A/CD3-PerCP?
Compensation FlowJo
12 months ago by ysun • 0
3
votes
3
replies
883
views
Looking for some guidance regarding motif ontology
ATAC-seq motifs HOMER
updated 12 months ago by ★ 19k • written 12 months ago by ▴ 10
0
votes
0
replies
325
views
Unicycler hybrid assembly run is frozen for 2 days with no error message
hybrid-assembly unicycler
12 months ago by langziv ▴ 70
6
votes
10
replies
2.5k
views
Seeking Advice: Best Network-based Backup Solutions (NAS or Alternatives) for a Small Lab
dataset Backup Hardware NAS
updated 12 months ago by 4.7k • written 12 months ago by ▴ 10
1
vote
0
replies
423
views
Calculating if cell proportions are significant using propeller
regression proportions scRNA-seq
12 months ago by mropri ▴ 170
0
votes
3
replies
1.3k
views
pySCENIC aucell matrix is all 0s
CLI SCENIC grn aucell
updated 12 months ago by • 0 • written 23 months ago by • 0
1
vote
1
reply
499
views
Overestimate of ATAC-seq differential peaks
MACS2 ATAC-seq DESeq2
updated 12 months ago by ★ 19k • written 12 months ago by • 0
0
votes
2
replies
1.2k
views
Mapping Mouse RNAseq Marker Genes to Reactome Pathways
RNA-seq single-cell pathways reactome
updated 12 months ago by • 0 • written 22 months ago by ▴ 50
1
vote
3
replies
891
views
Finding common genes for evolutionary analyses after finding DEG's from different env. stressed plants
DEG Galaxy-server RNA-seq
12 months ago by candy • 0
3
votes
2
replies
975
views
I need to index a GTF (gene transfer format) annotation file
GATK Funcotator GTF HLA-typing
updated 12 months ago by 45k • written 12 months ago by • 0
1
vote
6
replies
2.6k
views
Does the order of the batch variable matter in Limma design matrix?
Batch
updated 12 months ago by ★ 8.3k • written 19 months ago by ▴ 140
0
votes
2
replies
729
views
Genomic Context Analysis
Genomic-Context-Analysis Neighboring-genes
updated 12 months ago by 45k • written 12 months ago by • 0
2
votes
3
replies
734
views
Biological replicate for WGS sequencing
NGS Biological replicate WGS
updated 12 months ago by 153k • written 12 months ago by ▴ 120
26
votes
21
replies
4.9k
views
6 follow
Tool: New Illumina error mode, new BBTools release (39.09) to deal with it
assembly NovaSeqX Illumina poly-G bbtools
updated 7 months ago by 153k • written 12 months ago by 20k
4
votes
4
replies
1.6k
views
Forum: What companies do you recommend for targeted sequencing?
Targeted-sequencing
12 months ago by amy__ ▴ 250
1
vote
1
reply
558
views
Low Coverage WGS (Human) vs WES Hardware Requirements
macbook-pro WGS
updated 12 months ago by 153k • written 12 months ago by • 0
0
votes
0
replies
429
views
News: Online course: Population Genomic Inference from Low-Coverage Whole-Genome Sequencing Data
low-coverage-WGS ANGSD Population-Genomics
updated 12 months ago by 45k • written 12 months ago by ★ 2.6k
0
votes
1
reply
594
views
Intermixed clusters and cell types in UMAP for scRNA-seq analysis
PBMC UMAP scRAN-seq
updated 12 months ago by ▴ 270 • written 12 months ago by ▴ 20
3
votes
4
replies
1.6k
views
CIBERSORTX disable quantile normalization
RNA-seq
12 months ago by fifty_fifty ▴ 90
3
votes
8
replies
2.3k
views
How to download Gene annotations (by Ensembl) track on NCBI Sequence Viewer 3.49.0
Sequence-Viewer Ensembl NCBI
updated 12 months ago by • 0 • written 15 months ago by • 0
121,919 results • Page 70 of 2439
Recent Votes
A: read.table does not read in all rows!
A: read.table does not read in all rows!
A: Binning Over Genes And Calculating The Coverage [Bedops/Bedmap]
Answer: [vg giraffe] Unable to add read group to BAM file
Comment: [vg giraffe] Unable to add read group to BAM file
Answer: [vg giraffe] Unable to add read group to BAM file
Answer: vcf multisample
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Recent Replies
Comment: miRNA low mapping ratings by Ant ▴ 50
The first one it's the results from Cutadapter and the second block from miRDeep2.
Comment: miRNA low mapping ratings by Ant ▴ 50
Thanks for the reply, when running: cutadapt -a AACTGTAGGCACCATCAAT -M 30 -o example_trimmed.fastq.gz data/xxx.fastq.gz, the sequence le…
Comment: Help with species tree with orthofinder, iqtree and branch labeling by GenoMax 153k
> I don’t have clear species labels in my headers, only sequence IDs. I have not used iqtree, so this is only a thought ... should it be y…
Comment: Help with species tree with orthofinder, iqtree and branch labeling by san96 ▴ 190
Thank you so much.
Comment: [vg giraffe] Unable to add read group to BAM file by saruman ▴ 10
Yes, it seems so. Thank you.
Comment: cellranger mkref fail/error by GenoMax 153k
> The thing is that I do not have a genome for these organisms. That is not what `cellranger mkref` is expecting. You could consider alt…
Comment: cellranger mkref fail/error by tatsispolychronis • 0
The thing is that I do not have a genome for these organisms. i made a transcriptome using TRinity and this is what I am feeding it. I do n…
Comment: Genome Assembly QC from BAM files by SomeOne ▴ 240
Hi, I am not sure if i can call them good assemblies. Although based on QUAST and BUSCO stats, everything looks too good but somehow i hav…
Comment: cellranger mkref fail/error by GenoMax 153k
You need to provide the genome reference for the `--fasta` option as noted in https://www.10xgenomics.com/support/software/cell-ranger/late…
Answer: Methods to analyse structural similarity: co-evolution vs convergence by Joe 22k
Without historical data (ancient DNA) there's no way to ever really know this for certain. The best we can do is make inferences based on t…
Answer: vcf multisample by Pierre Lindenbaum 166k
eg : https://ega-archive.org/datasets/EGAD50000001683 > Merged VCF file from sporadic Meniere disease cohort (found using https://dat…
Comment: Genome Assembly QC from BAM files by GenoMax 153k
Since this saga has been on going for a long time, it will be helpful to add a comment as to how you finally got to this point of what seem…
Comment: Methods to analyse structural similarity: co-evolution vs convergence by dthorbur ★ 3.1k
A few comments. 1. Coevolution of a trait between 2 organisms can end up with a convergent structure with another organism. It's not e…
Comment: Genome Assembly QC from BAM files by SomeOne ▴ 240
Thank you. Based on the description these two look really what i wanted to see.
Comment: miRNA low mapping ratings by i.sudbery 22k
Also, can you just clarify that the output above is from cutadapt or form miRDeep2?
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