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121,984 results • Page 253 of 2440
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2
votes
1
reply
1.4k
views
CORUM not working?
database protein complexes corum
2.3 years ago by marta • 0
2
votes
2
replies
958
views
how to use Hemtools bed2vcf?
vcf linux conversion bed
updated 2.4 years ago by 166k • written 2.4 years ago by ▴ 20
0
votes
0
replies
1.5k
views
Job: PhD students in Data Science - DTU Biosustain
PhD Biology Data-Science
updated 2.4 years ago by 45k • written 2.4 years ago by ▴ 80
0
votes
3
replies
1.2k
views
1000G reference panel for LD
plink gwas LD
2.4 years ago by en_keser • 0
0
votes
1
reply
490
views
How to calculate SARS-2'S evolutionary rate
evolutionary-rate
updated 2.4 years ago by 45k • written 2.4 years ago by • 0
5
votes
4
replies
2.7k
views
how to use nohup with parallel
parallel nohup
updated 2.4 years ago by 154k • written 2.4 years ago by ▴ 10
1
vote
1
reply
927
views
How do I restrict to only hm3 SNPs for plink analyses?
plink hm3
updated 2.4 years ago by 11k • written 2.4 years ago by • 0
0
votes
0
replies
511
views
How to retrieve non-redundant restriction enzymes database from Rebase?
Rebase Databases enzymes Restriction
2.4 years ago by Mahmoud Reda ▴ 10
1
vote
2
replies
1.2k
views
Converting RefSeq protein accession IDs into entreZ IDs
RNA-SEQ
2.4 years ago by Pegasus ▴ 130
1
vote
6
replies
3.0k
views
Using entrez-direct inside a for loop in bash
NCBI bash
updated 2.4 years ago by 154k • written 6.6 years ago by ▴ 50
1
vote
2
replies
1.3k
views
how to intersect multiple bed files and get results in uncollapsed genomic intervals
bedtools bedops
updated 2.3 years ago by 45k • written 2.4 years ago by ▴ 190
0
votes
0
replies
469
views
References selected by ExomeDepth CNV
CNV ExomeDepth
updated 2.4 years ago by 154k • written 2.4 years ago by • 0
0
votes
3
replies
1.8k
views
ABySS genome assembler
ABySS genome k-mers assembly
updated 2.4 years ago by ★ 1.8k • written 2.4 years ago by • 0
0
votes
2
replies
1.3k
views
BCR/TCR analysis using target capture sequencing data
capture ngs TCR BCR
2.4 years ago by J.F.Jiang ▴ 930
1
vote
3
replies
1.4k
views
Regular Expression for conversion
Linux grep
updated 2.4 years ago by 22k • written 4.0 years ago by ▴ 10
1
vote
1
reply
790
views
weird behaviour on bedtools
bedtools RNA-Seq
updated 2.4 years ago by 45k • written 2.4 years ago by ▴ 130
3
votes
3
replies
1.7k
views
Retrieving allele-specific information for a variant using VEP annotation
variant-calling VEP COSMIC
2.4 years ago by bt_cepo ▴ 40
0
votes
1
reply
963
views
[Metagenome assembly] Reassembling bacterial genome using Nanopore contig/reads
illumina nanopore assembly metagenome
updated 2.4 years ago by • 0 • written 2.4 years ago by ▴ 20
0
votes
2
replies
2.4k
views
IGV grey vs white lines
minimap nanopore IGV
updated 2.4 years ago by 154k • written 2.4 years ago by ▴ 50
2
votes
2
replies
1.8k
views
featureCounts: ERROR: failed to find the gene identifier attribute
gtf featureCounts subread
updated 2.4 years ago by 154k • written 2.4 years ago by ▴ 140
7
votes
5
replies
1.6k
views
6 follow
Unusual FASTQ file
fastqc fastq RNAseq
updated 2.4 years ago by 45k • written 2.4 years ago by • 0
0
votes
2
replies
1.2k
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
nanostring gsea r
2.4 years ago by RM123 ▴ 10
0
votes
1
reply
711
views
ABySS Process Killed
ABySS genome assembly
updated 2.4 years ago by 154k • written 2.4 years ago by • 0
0
votes
0
replies
388
views
Cell type sub-clustering across multiple samples in scRNA-seq
scRNA-seq
2.4 years ago by narges.bioinf • 0
0
votes
4
replies
1.3k
views
Trimming sequencing primers from reads
trimming primers next-gen-sequencing
updated 2.4 years ago by 166k • written 2.8 years ago by ▴ 10
0
votes
3
replies
998
views
Query qbout single cell sequencing
fastq ScRNA
updated 2.4 years ago by 45k • written 2.4 years ago by ▴ 20
1
vote
1
reply
886
views
Why coordinate sort is required in sambamba depth?
linux samtools sambamba
updated 2.4 years ago by 166k • written 2.4 years ago by ▴ 20
0
votes
4
replies
1.4k
views
I need help with a methyl array data analysis
methyl_array DMPs DMRs beta_value r
2.4 years ago by Ahmad ▴ 10
0
votes
2
replies
767
views
Error in download library file in expression console software
expression microarray console
2.4 years ago by Mohammad • 0
4
votes
2
replies
968
views
ScRNA data
scRNA-seq
updated 2.4 years ago by 45k • written 2.4 years ago by ▴ 20
1
vote
2
replies
939
views
extract all fasta sequence from db v5
blast protein
updated 2.4 years ago by 154k • written 2.4 years ago by ▴ 80
3
votes
2
replies
1.5k
views
Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, but the Max expression are near 20,000
Expression RNAseq
2.4 years ago by alwayshope ▴ 40
0
votes
6
replies
1.5k
views
Demultiplexing bam file
demultiplexing bam_file Iontorrent
2.4 years ago by hasani.iut6 ▴ 60
1
vote
2
replies
819
views
DEgs RNAseq
RNAseq
2.4 years ago by Juan • 0
1
vote
6
replies
3.6k
views
Counting intronic reads in bulk RNA-seq
rna-seq
updated 2.4 years ago by 15k • written 2.4 years ago by ▴ 310
0
votes
11
replies
2.8k
views
Single cell chemistry
cell single chemistry
updated 2.4 years ago by 15k • written 2.4 years ago by • 0
0
votes
0
replies
858
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
2.4 years ago by LauferVA 4.8k
0
votes
7
replies
3.4k
views
Why are some WES VCFs larger than others?
WES sequencing genomics NGS exome
2.3 years ago by LayneSadler ▴ 90
0
votes
4
replies
1.7k
views
SyntaxError (Perhaps you forgot a comma?) in snakefile when running FastQC.
snakemake
2.4 years ago by Dhatri Badri • 0
0
votes
1
reply
773
views
problem of Global Biobank Meta-analysis Initiative
GWAS
updated 2.4 years ago by ★ 3.0k • written 2.4 years ago by • 0
1
vote
1
reply
799
views
DownsampleSam
picard DownsampleSam
updated 2.4 years ago by 166k • written 2.4 years ago by • 0
0
votes
1
reply
862
views
Error while running Megahit
Megahit
updated 2.4 years ago by ★ 30k • written 2.4 years ago by • 0
0
votes
0
replies
489
views
corresponding clinical data from TCGA database of PSI values for CCA AS events in spliceseq database
TCGA
2.4 years ago by dima • 0
1
vote
0
replies
663
views
How to assess which cell population is most affected by treatmant in single cell rna seq data?
transcriptomics single-cell RNA DEG
2.4 years ago by abbas89 ▴ 30
0
votes
3
replies
1.2k
views
metric informing about the similarity of gene lists in OrderedList
orderedlist
updated 2.4 years ago by 4.8k • written 2.4 years ago by • 0
18
votes
6
replies
8.8k
views
VCF header line counting
vcf header
updated 2.4 years ago by ▴ 610 • written 10.6 years ago by ▴ 40
0
votes
2
replies
1.7k
views
Can I send my PyMol results to a web-page as a result for a submitted query? If not, how can I get a 3d render of a protein as a result for a user su…
protein-structure pymol protein pdb python
2.3 years ago by Aatif Hashmi • 0
2
votes
7
replies
1.9k
views
Design matrix to remove technical replicate effect
edgeR
updated 23 months ago by • 0 • written 2.4 years ago by ▴ 10
1
vote
1
reply
1.0k
views
Differentially expressed gene with high log2foldchange by DESeq2; but not meaningful at the individual level
DESeq2 RNA-seq DGEA
2.3 years ago by Sara ▴ 40
1
vote
2
replies
987
views
Abyss taking a Long time to run
abyss assembly genome fastq
2.4 years ago by Maliha ▴ 30
121,984 results • Page 253 of 2440
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Answer: Quantification using salmon in alignment-based mode after minimap2 run
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Answer: Corresponding BAM files
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Comment: Difficulty running FoldX in linux by Mensur Dlakic ★ 30k
The program is definitely working. It doesn't matter that it didn't produce `TER` and `END` lines at the end. Those are optional in PDB fil…
Answer: Best set of tools / workflows for predicting the biosynthesis pathways of comple by ehaag ▴ 100
I tried [searching for tools in the NIAID Data Ecosystem][1] and found something that may be relevant. [PathPred][2] is an enzyme catalyzed…
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere by ehaag ▴ 100
I did a quick [search for tools in the NIAID Data Ecosystem][1] and found a few that map Illumina short reads onto a reference genome, incl…
Answer: Corresponding BAM files by GenoMax 154k
You can get BAM files for 10x single-cell data and they can be found under the `Data Access` tab of the SRA record under the `Original Form…
Comment: GTF file for HIV strain pNL4-3 by Ales ▴ 50
All of the genome assemblies are from the LANL compendiu, match accession with GENBANK (>2,000 complete genome assemblies from the 2021 LAN…
Comment: Hisat2 splice sites extract blank files by Ales ▴ 50
hisat2_extract...py scripts make several assumptions about the input GTF files. For example, they require gene_id field to be present for a…
Comment: GTF file for HIV strain pNL4-3 by GenoMax 154k
> This project started from my personal need to improve spliced alignment Are there plans to submit these annotations to NCBI/EBI? Are yo…
Comment: Hisat2 splice sites extract blank files by Ales ▴ 50
Interestingly, HIV/SIV specifically does have quite an elaborate splicing system which regulates translation. However, only one of the spli…
Answer: Analyzing CRISPR and RNAi genome wide screens by Meisam ▴ 250
I'm late to the party but in case someone has the same question: one practical approach is using **rank-based** methods to meta-analyse you…
Answer: meta data analysis for clustering by Meisam ▴ 250
I'm late to the party but one practical approach is using **rank-based** methods to meta-analyse your screens, which basically bypass the n…
Comment: convert genome file to transcriptome file by Ales ▴ 50
Should be noted that the gtf/gff and genomic.fna files for HIV only contain CDS annotations of the 9 ORFs and not the full transcripts. Onl…
Comment: GTF file for HIV strain pNL4-3 by Ales ▴ 50
just wanted to follow up that to address this specific issue we just released HIV transcriptome annotations of alternative splicing featuri…
Answer: GTF file for HIV strain pNL4-3 by Ales ▴ 50
For anyone stumbling on this. We have recently completed reference-grade annotation for several thousand HIV-1 genomes including the HXB2 (…
Comment: Dorado in PowerShell on Windows by sbissi102 ▴ 10
Yes, I found all the barcodes, but could working on WSL affect the basecalling results?
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