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121,908 results • Page 43 of 2439
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Blog: Novogene Single-cell and Spatial Multi-omics Case Study II: Pan-cancer Research and Application
Multi-omics Single-cell
8 months ago by Novogene ▴ 510
0
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0
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337
views
Can checkM do automatic genus identification?
checkM
8 months ago by blur ▴ 280
2
votes
0
replies
513
views
News: Pangenomix Ltd : A bioinformatics consulting venture
bioinformatics microbial genomics Consulting
8 months ago by Nitin ▴ 20
1
vote
5
replies
995
views
Integrating gene ontology DB's into pipeline scripts
DAVID Pipelines GO
8 months ago by joemrosen • 0
0
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3
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1.0k
views
homer installation
homer
updated 8 months ago by 153k • written 8 months ago by • 0
0
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1
reply
436
views
Advaita iPathwayGuide - How many GO modules are possible for each gene?
Gene-Ontology Advaita
updated 8 months ago by 45k • written 8 months ago by • 0
1
vote
2
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1.0k
views
MAF tools - changing tumor sample barcode name
maf maftools r
updated 8 months ago by 12k • written 8 months ago by ▴ 90
4
votes
13
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2.0k
views
Mouse genome featureCounts
GRCm39 RNA-seq featureCounts
8 months ago by rajdeepboral00 ▴ 70
2
votes
5
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1.1k
views
Convert bcf to vcf and run snp2hla tool in windows subsytem for linux
snp2hla vcf bcf
updated 8 months ago by 103k • written 8 months ago by ▴ 140
0
votes
0
replies
360
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Extracting coomon SNPs, medging SNP data from illumina platform and affymetrix (AXIOM SUITE).
Bovine Axiom Chip Genotyping
8 months ago by Maxmangomo1997 • 0
0
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0
replies
396
views
How to Perform Lineage Analysis Using SNPs Derived from a De Novo Assembly?
Plink Phylogenetics VFC Lineage Lineage-analysis
8 months ago by alex • 0
1
vote
0
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1.2k
views
Job: Job Opportunity - Remotely Allowed - Italy
data-analysis environmental-science R SQL Python
updated 8 months ago by 7.9k • written 8 months ago by ▴ 10
1
vote
1
reply
594
views
How to get all chromosomes RefSeq ID from RefSeq assembly ID?
AssemblyAccession Database Entrez RefSeq NCBI
updated 8 months ago by 153k • written 8 months ago by • 0
0
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5
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1.8k
views
Help Analysing Perturb-Seq Data - How do I extract 10X cell barcodes and relevant guides from fastq files?
Single-Cell Perturb-Seq 10X
updated 8 months ago by 89k • written 12 months ago by • 0
0
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0
replies
342
views
SNPnexus
SNPs Histone SNPnexus Non-coding modification
8 months ago by saira • 0
0
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0
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604
views
News: Online Course - A Practical Introduction to NGS Data Analysis (February 10-12, 2025)
Workshop RNAseq Illumina DNAseq VariantCalling
8 months ago by ecSeq Bioinformatics ▴ 20
3
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10
replies
3.9k
views
TOM matrix generated by WGCNA package in R
WGCNA
updated 8 months ago by 153k • written 3.6 years ago by • 0
0
votes
1
reply
749
views
WIG files - bulk RNA-seq
RNAseq WIG normalisation fastq
updated 8 months ago by ★ 1.6k • written 8 months ago by • 0
1
vote
2
replies
1.2k
views
Recommended reliable enrichment tool
ontology enrichr enrichment
updated 8 months ago by ▴ 470 • written 8 months ago by • 0
1
vote
4
replies
1.3k
views
Extracting Variant Sequences from 1000 Genomes VCF File and Mapping to Canonical Gene Sequence
bcftools genome vcf wgs
updated 5 months ago by ★ 4.3k • written 8 months ago by ▴ 40
3
votes
5
replies
3.2k
views
7 follow
Comparing SV calls produced by VG call on a Minigraph-Cactus produced Pangenome Graph vs. a linear reference
minigraph-cactus variant-calling structural-variant vg
updated 7 months ago by 153k • written 2.1 years ago by ▴ 40
13
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7
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1.8k
views
7 follow
Forum: Premade RNA-seq pipeline or custom
rna-seq pipeline
updated 8 months ago by 22k • written 8 months ago by ▴ 40
4
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2
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687
views
MT and rRNA gene expression in bulk RNA-seq sample QC filtering
RNA-seq
8 months ago by noodlejackson ▴ 40
0
votes
1
reply
574
views
Pocket comparison of homologuos proteins suitable to inform mutagenesis
prokaryotes structure
updated 8 months ago by ★ 3.1k • written 8 months ago by ▴ 10
0
votes
1
reply
465
views
What are your thoughts on automatic segmentation of metastases using Deep Learning Models?
metastases deep-learning
updated 8 months ago by 89k • written 8 months ago by • 0
1
vote
0
replies
20k
views
Herald: The Biostar Herald for Tuesday, January 07, 2025
herald
8 months ago by Biostar 3.6k
2
votes
1
reply
581
views
Bulk-RNA-Seq integrate control samples.
modelmatrix RNA-Seq
updated 8 months ago by 22k • written 8 months ago by ▴ 10
4
votes
3
replies
908
views
How to check SRA file download possible corrupted?
sra
updated 8 months ago by 103k • written 8 months ago by ▴ 60
7
votes
2
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859
views
How to Resolve Reference Mismatch While Extracting Gene Variants from 1000 Genomes Project Phase 3 VCF?
samtools bcftools grch38 genome vcf
8 months ago by Rohan ▴ 40
9
votes
4
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3.7k
views
Forum: A beginner's guide and In-depth exploration of AlphaFold
AlphaFold ColabFold
updated 8 months ago by ★ 30k • written 8 months ago by ▴ 20
0
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0
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455
views
Is the significance of p-value between different ROC curves of machine learning models important?
ROC pvalue learning python machine
8 months ago by egascon ▴ 60
0
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2
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636
views
Custom Database Kraken2 with Metagenomes
database kraken2
8 months ago by alenew.am ▴ 10
0
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0
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386
views
NIPT data downstream interpretation
NIPT
8 months ago by 1769mkc ★ 1.3k
2
votes
3
replies
647
views
Per base sequence content variation after doing fastqc
rna-seq fastqc
updated 8 months ago by 153k • written 8 months ago by • 0
0
votes
4
replies
1.7k
views
Biopython installation error
biopython
updated 8 months ago by ★ 2.1k • written 10 months ago by • 0
0
votes
0
replies
291
views
Using ANNOVAR to identify variants falling within ALU elements
ANNOVAR
8 months ago by Aiswarya ▴ 20
0
votes
0
replies
351
views
Alluvial Plot of TCR Sequencing Data
TCRseq alluvial-plot
updated 8 months ago by 45k • written 8 months ago by • 0
4
votes
4
replies
1.5k
views
single-cell data: Batch effects still there after integration
single-cell integration batch-effect
8 months ago by Penny • 0
0
votes
1
reply
367
views
Methods for correlating clinical measures with gene expression?
rna-seq correlation
updated 8 months ago by 89k • written 8 months ago by • 0
2
votes
5
replies
937
views
How to Obtain Gene-Transcript Isoforms from RefSeq Format using a gff files as input?
gff isoforms refseq
8 months ago by mauricio.1313 • 0
2
votes
6
replies
922
views
nanopore sequencing - fastp dedup option
fastp nanopore
updated 8 months ago by 7.9k • written 8 months ago by • 0
0
votes
0
replies
397
views
News: Cancer Genomics course - online 10-14 March
R Cancer-Genomics Tumor-Evolution
8 months ago by Physalia-courses ★ 2.6k
14
votes
5
replies
4.4k
views
BD Rhapsody software - single cell seq
bd rhapsody single-cell
updated 8 months ago by 89k • written 2.4 years ago by 7.9k
6
votes
6
replies
4.2k
views
7 follow
Detecting Structural variants in sequencing data
structural variants sequencing calling SVs
updated 8 months ago by ▴ 10 • written 8.3 years ago by ▴ 30
0
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0
replies
475
views
Calculate allelic richness from vcf/plink data.
R HierFstat genepop Ares
updated 8 months ago by 45k • written 8 months ago by • 0
0
votes
0
replies
303
views
filter_vep not filtering variants based on EAS_AF and gnomADe_EAS_AF as expected
wes VCF vep variants filter_vep
updated 8 months ago by 45k • written 8 months ago by • 0
3
votes
5
replies
914
views
single cell clusters
single-cell-sequence SCRNA
updated 8 months ago by 6.6k • written 8 months ago by ▴ 30
0
votes
0
replies
470
views
News: online course - Assembly and Annotation of Genomes
Genome-Assembly Genome-Annotation Galaxy
updated 8 months ago by 45k • written 8 months ago by ★ 2.6k
1
vote
7
replies
4.7k
views
error in pipeline installation dependent on numpy version 1.18.5
numpy cnn python imaging
updated 8 months ago by 15k • written 2.7 years ago by ▴ 260
3
votes
5
replies
1.9k
views
Extracting and visualizing of specific genomic reference structures
visualization odgi pangenome visualisation vg
updated 8 months ago by 7.9k • written 10 months ago by ▴ 10
121,908 results • Page 43 of 2439
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Tried building a compact sequence format with 4-bit storage
Comment: Tried building a compact sequence format with 4-bit storage
Answer: Tried building a compact sequence format with 4-bit storage
Tried building a compact sequence format with 4-bit storage
Shift in RNA 3' position, Term-Seq vs RNASeq
Comment: STARlong for pacbio Isoseq reads
Comment: Automatically annotating a feature using a genbank file
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Recent Replies
Comment: Tried building a compact sequence format with 4-bit storage by Pranava ▴ 10
I see, but the reason I was planning on using a 4bit system is so that there wouldn't be too much data loss but thank you for the suggesti…
Comment: Splice junctions plots for long-read seq data by alison.ludzki • 0
Thank you! I will check out miso!
Comment: Hifiasm is getting killed while trying to assemble a genome by pranavdatar01 • 0
I did subsample the data to 30x coverage. I did run hifiasm on it, the log file did show some contents, but hifiasm ended again, stating th…
Comment: Tried building a compact sequence format with 4-bit storage by Alex Reynolds 36k
Using four bits for storage won't beat 2bit, of course, but direct access to a sequence of interest sounds interesting and useful and might…
Comment: Hifiasm is getting killed while trying to assemble a genome by Panos ★ 1.8k
Why don't you subsample your HiFi reads and try running hifiasm again? Maybe this will help if you have memory problems. However, I haven't…
Comment: Is total miRNA in EV constant? Implications for library size normalization. by Gordon Smyth ★ 8.3k
RNA-seq is very good at relative analyes. It would be straightforward to determine which miRNAs are relatively more abundant, compared to o…
Comment: Tried building a compact sequence format with 4-bit storage by Pranava ▴ 10
Woah!!! Thank you very much, Matthias. I honestly didn't even know some of those existed and I will definitely go through them and try to u…
Answer: Tried building a compact sequence format with 4-bit storage by Matthias Zepper 5.1k
Hello Pranava, Thanks for sharing your repository. Devising a new file format is an interesting undertaking and certainly a task with many…
Answer: Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio) by GenoMax 153k
`LOC` gene ID's are often assigned to uncharacterized genes and you may not get useful information from databases for them, thus they will …
Comment: Whole Genome Sequencing IG regions by GenoMax 153k
> are the calls I am seeing reliable or should I take them with something of a pinch of salt? Not sure what calls you are referring to but…
Comment: RNA-SEQ where only a subset of genes is of interest by piffelpaff • 0
Sorry to revive this ancient thread but I'm currently discussing the same question with some people in my lab and would love to somebody po…
Answer: STARlong for pacbio Isoseq reads by YuZJ • 0
Hello, you may try deSALT (DOI: 10.1186/s13059-019-1895-9, GitHub: ydLiu-HIT/deSALT) or uLTRA (DOI: 10.1093/bioinformatics/btab540, GitHub:…
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq by acvill ▴ 350
Without knowing the details of the Term-seq method, could the 38 nt shift be accounted for by the difference in the position of the ribosom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
Thanks, I'll give it a try.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
You could give `mapPacBio.sh` from BBMap suite a try while you wait for other answers. That works for reads up to 6 kb. BBMap has a new hom…
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