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121,927 results • Page 92 of 2439
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Large insertion sequence reconstruction from paired-end sequenced sample BAM files
reconstruction
14 months ago by Qboy ▴ 10
3
votes
1
reply
547
views
4-way plot for comparing DEGs between 4 genotypes
DEG
updated 14 months ago by ★ 3.1k • written 14 months ago by • 0
0
votes
1
reply
967
views
How to concat multiple h5ad files into one
singlecell singlecellexperiment h5ad python anndata
updated 14 months ago by 13k • written 14 months ago by ▴ 20
1
vote
16
replies
2.1k
views
Bacterial RNASeq doubts
samtools bacteria featureCounts rnaseq
updated 14 months ago by 153k • written 14 months ago by • 0
3
votes
2
replies
904
views
How to figure out adapter sequence to use for trimming old miRNAseq data
paired-end fastq rna-seq mirna-seq trimming
14 months ago by hsothers ▴ 10
2
votes
1
reply
774
views
Do I need to remove doublets after before or after running hashsolo?
hashsolo scanpy scrublet
updated 14 months ago by ▴ 940 • written 14 months ago by ▴ 160
0
votes
2
replies
722
views
Appropriate regression analysis for relationship of WGCNA modules with clinical traits
quantile linear WGCN polynominal eigengen
14 months ago by seta ★ 1.9k
0
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0
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421
views
News: Virtual Genome Assembly Workshop 7/15-18
assembly workshop genome instruction virtual
14 months ago by mia.nahom ▴ 10
0
votes
0
replies
324
views
An article analyzing the differences in results caused by the use of dosage and hard call in GWAS
hard-called GWAS dosage
14 months ago by Isaac • 0
5
votes
2
replies
2.5k
views
Change the layout of the Venn diagram
R ggplot2 venn
updated 14 months ago by ▴ 820 • written 14 months ago by ▴ 60
1
vote
3
replies
778
views
snakemake config file with path
snakemake
updated 14 months ago by ▴ 140 • written 14 months ago by ▴ 80
1
vote
1
reply
528
views
Best 64 core CPU under 2000$
HPC CPU Workstation
updated 14 months ago by 45k • written 14 months ago by • 0
0
votes
6
replies
1.5k
views
DESeq2 for DE analysis of proteins
proteomics DESeq2
updated 14 months ago by ★ 7.7k • written 14 months ago by • 0
1
vote
1
reply
508
views
Finding Insert in plasmid
bacteria assembly insert plasmid
updated 14 months ago by 153k • written 14 months ago by ▴ 170
1
vote
4
replies
1.2k
views
IGV - ChIP-Seq
BigWig IGV BedGraph Bed
updated 14 months ago by ★ 1.6k • written 14 months ago by • 0
0
votes
3
replies
1.4k
views
Demultiplexing Tool
NGS Fastq Demultiplexing Thermo
updated 14 months ago by ★ 1.6k • written 14 months ago by ▴ 60
0
votes
0
replies
287
views
Active and Decoy generation
DUD pharmacophore_modeling alternatives
14 months ago by ruth ▴ 20
0
votes
1
reply
981
views
GATK GenomicsDBImport update database error using snakemake
GenomicsDBImport snakemake gatk
updated 14 months ago by 23k • written 14 months ago by ▴ 210
1
vote
1
reply
486
views
RNA-seq
server seq RNA- Galaxy
updated 14 months ago by 12k • written 14 months ago by • 0
0
votes
1
reply
622
views
VCF file GL field confusion
bcftools format VCF genotype specification
14 months ago by mtrw85 ▴ 10
0
votes
3
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856
views
Fastest way to get rsid from SNP position
snp dbsnp annotation
updated 14 months ago by 166k • written 14 months ago by ▴ 60
1
vote
6
replies
1.2k
views
File format to view overlapping peaks on multiple separate tracks in IGV
UCSC Genome IGV Browser
14 months ago by Anisur Rahman ▴ 80
0
votes
5
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1.2k
views
Pathway analysis for DGEList
KEGG Pathway_analysis GO gene_expression DGEList
updated 14 months ago by ★ 2.1k • written 14 months ago by ▴ 20
1
vote
2
replies
824
views
vg giraffe handling of second vs. supplemental/split alignments, novel SVs, and associated MAPQ
vg
updated 14 months ago by ▴ 760 • written 14 months ago by • 0
0
votes
0
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388
views
Should I run SVA or not?
Clustering SVA Batch
14 months ago by BioinfGuru ★ 2.1k
1
vote
2
replies
887
views
SPADES output
contigs scaffolds output SPADES
14 months ago by san96 ▴ 190
0
votes
3
replies
1.1k
views
alphafold hpc large fasta file job
fasta hpc alpahfold prediction
14 months ago by Kayenat Sheikh • 0
2
votes
2
replies
903
views
How to obtain the names and chromosome position of all immunoglobulin genes from mouse mm10 assembly genome using ucsc?
ucsc-table-browser
updated 14 months ago by 45k • written 14 months ago by • 0
2
votes
1
reply
685
views
Associations with small-ish patient clinical data with bulk RNA-seq expression
statistics ai rna-seq stats machine-learning
updated 14 months ago by ★ 2.1k • written 14 months ago by ▴ 40
1
vote
2
replies
897
views
Help with complex Volcano Plot
ggplot2 volcano DEGs
14 months ago by jmannhei ▴ 10
1
vote
2
replies
675
views
A Linux server reports an error when processing RNA-seq data comparison
Linux
updated 14 months ago by 153k • written 14 months ago by • 0
0
votes
2
replies
927
views
Programmatic JS ways to get interesting information about genes by symbol or accession ID
javascript metadata gene annotation
14 months ago by Alex Reynolds 36k
4
votes
3
replies
988
views
gene ids do not have corresponding valid gene names kallisto bus tools
mapping kallisto bustools
updated 14 months ago by ★ 7.7k • written 14 months ago by • 0
0
votes
1
reply
786
views
Stranded cDNA libraries and genome mapping
cDNA sequence strand
updated 14 months ago by ★ 1.6k • written 14 months ago by ▴ 10
0
votes
5
replies
1.4k
views
How can I get an allele count table from a .vcf file?
GATK calling variant vcf
updated 14 months ago by 23k • written 14 months ago by • 0
0
votes
0
replies
363
views
Error in name duplicate for miRNA differential analysis
miRNA differential-analysis
updated 14 months ago by 45k • written 14 months ago by • 0
1
vote
4
replies
1.1k
views
multiple response SRR URLs for the same service 's3'
geo accession ncbi
14 months ago by akar_ozan01 • 0
3
votes
2
replies
911
views
bamCoverage --MNase error : function a paired end library is required.
deeptools
updated 14 months ago by 153k • written 14 months ago by ▴ 120
0
votes
2
replies
675
views
Rsubread with unexpected read order results
rsubread
updated 14 months ago by 153k • written 14 months ago by • 0
0
votes
0
replies
435
views
Interpreting cNMF with 2 equivalent best ranks
python cNMF
14 months ago by yura.grabovska ▴ 820
15
votes
8
replies
4.0k
views
Running fastqc in parallel
quality fastqc
updated 14 months ago by ★ 2.1k • written 14 months ago by ▴ 350
0
votes
2
replies
719
views
how to colorize snakemake editing text
snakemake
updated 14 months ago by 56k • written 14 months ago by ▴ 80
0
votes
0
replies
416
views
Low libsize of one sample after STAR+featureCounts pipeline w.r.t other samples
featurecounts STAR libsize dge edgeR
14 months ago by DYLAN NICO • 0
0
votes
2
replies
1.7k
views
Statistical analysis for proteomic data with more than one effect in the model
proteomic statistics model two effects
updated 14 months ago by 153k • written 4.9 years ago by • 0
3
votes
4
replies
1.2k
views
Findind the annotation file of the Illumina Infinium HumanMethylation450k array
Illumina R
updated 14 months ago by ▴ 820 • written 14 months ago by ▴ 10
0
votes
2
replies
775
views
"Guidance Needed for Analyzing Quantitative Protein Data Using Perseus Software"
mass-spectrometry perseus
updated 14 months ago by 45k • written 14 months ago by • 0
3
votes
4
replies
1.1k
views
Where can I download dbsnp in hg19?
dnsnp hg19
14 months ago by _quantum_girl_ ▴ 60
0
votes
12
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1.9k
views
Creating a sample specific directory on the go while using -wget command to download the files
wget ncbi
updated 14 months ago by 45k • written 14 months ago by • 0
0
votes
0
replies
407
views
Compute percentage normalization of gene expression in diseased samples vs healthy controls
statistics RNA-seq DESeq2
14 months ago by Dataminer ★ 2.8k
2
votes
4
replies
998
views
indexing the drosophila genome for kallisto
index kallisto
14 months ago by gogeni5529 ▴ 80
121,927 results • Page 92 of 2439
Recent Votes
Answer: Genome Assembly QC from BAM files
Answer: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to
Comment: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to
Answer: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to
Comment: Genome Assembly QC from BAM files
Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)
Comment: cellranger mkref fail/error
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Comment: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to by saruman ▴ 10
It is astonishing that there is no straightforward way to match accessions and their host. Anyhow, I will use `datasets` as suggested, thou…
Comment: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to by Mensur Dlakic ★ 30k
Always good to learn new things.
Comment: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to by GenoMax 153k
> I don't think there are any host links in NCBI records This information is not available for all genomes, but it is there for some of th…
Answer: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to by Mensur Dlakic ★ 30k
As you said, the package does not support the search for hosts. Furthermore, I don't think there are any host links in NCBI records, so it …
Answer: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to by GenoMax 153k
There may be a better answer, but let us start here. This is a two (or more step) solution using NCBI `datasets` ([**LINK**][1]). NOTE: I…
Answer: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie by Vittorio • 0
Joining the convo a bit late, but I found it super useful since I am struggling to analyze MGI data myself. For the library prep used in th…
Comment: How to overcome OS return value: 4 with SPAdes by marongiu.luigi ▴ 760
Yep, that was it. I was using a G:-sync folder... Thank you.
Comment: Help with Model by i.sudbery 22k
There is no way to "code" this directly. Your problem is mathematics, not programming. Standard stochastic models deal with a set of sta…
Answer: How to overcome OS return value: 4 with SPAdes by GenoMax 153k
I am going to hazard a guess that the spaces and email address in file path (you may want to redact your email from post above) is causing …
Comment: Hifiasm is getting killed while trying to assemble a genome by GenoMax 153k
Are you trying to reproduce the assembly result? If not, the complete assembly is already available at NCBI: https://www.ncbi.nlm.nih.gov…
Comment: Genome Assembly QC from BAM files by GenoMax 153k
This may be another example where the assembly you obtained may be better than an existing one .. certainly as far as the accessory chromos…
Comment: Genome Assembly QC from BAM files by SomeOne ▴ 240
There are some reference assemblies. Some close ones are at chromosome level but exact reference are not chromosome level assemblies. Othe…
Comment: Understanding the relationship between hhr and a3m output of HHblits by Joe 22k
Nice detective work! :)
Comment: Hifiasm is getting killed while trying to assemble a genome by pranavdatar01 • 0
The SRA accession is SRX12366993
Comment: SNP calling with bacterial assembled genome by GenoMax 153k
> After I find some differences between the assembly and the reference, how can I decide confident variants without the depth? Don't think…
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