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121,907 results • Page 683 of 2439
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7
votes
4
replies
1.9k
views
SARS-CoV2 strain identifying strain
Covid19 SARS-CoV-2 GISAid
updated 20 months ago by 45k • written 4.5 years ago by ▴ 100
0
votes
0
replies
1.2k
views
alternative package for littlesMCAR() or mcar_test()
littlesMCAR MCAR missingdata
4.5 years ago by RNAseqer ▴ 280
0
votes
0
replies
835
views
Job: Postdoctoral fellowship in Bioinformatics in Houston
RNAbiology python sequencing
updated 4.2 years ago by 45k • written 4.5 years ago by • 0
14
votes
10
replies
3.5k
views
6 follow
How to reverse the order of **records** in a fasta file
sequence pipeline programming fasta
updated 4.5 years ago by 21k • written 4.5 years ago by ▴ 320
1
vote
4
replies
5.1k
views
[E::bwa_idx_load_from_disk] fail to locate the index files
bwa
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 10
0
votes
2
replies
1.2k
views
Identification of protein domain encoding multi-exon genomic intervals
geneprediction
4.5 years ago by Anand Rao ▴ 640
2
votes
2
replies
1.1k
views
Adding mean and error onto scatterplot data
rstudio rna-seq ggplot
4.5 years ago by julianneradford ▴ 20
1
vote
4
replies
1.7k
views
ChIPQC reporting fewer reads in bam than are actually present
R ChIPseq ChIPQC
4.5 years ago by gkunz ▴ 30
0
votes
1
reply
1.1k
views
Observation weights in zinbwave and it's use in deseq
zinbwave data deseq
updated 4.5 years ago by 89k • written 4.5 years ago by • 0
2
votes
1
reply
1.0k
views
Converting Aminoacid MSA alignment to Nucleotide MSA alignment ?
nucleotide dna alignment protein rna
updated 4.5 years ago by ★ 30k • written 4.5 years ago by ▴ 1000
0
votes
0
replies
1.4k
views
Job: Fully Funded Multiple PhD Positions in the interface of Machine Learning(Deep Learning) and Health Informatics (including Bioinformatics and Clinical…
deeplearning analytics python
updated 4.2 years ago by 45k • written 4.5 years ago by • 0
0
votes
2
replies
1.3k
views
Tabix file format
MatrixeQTL Tabix miRNA
4.5 years ago by georgians ▴ 50
0
votes
0
replies
742
views
Generating plots from lima report: demultiplex pacbio .bam files
demultiplex Barcode PacBio
updated 4.5 years ago by 153k • written 4.5 years ago by • 0
0
votes
1
reply
1.7k
views
Determine the significance of peak overlaps (bedtools)
bedtools peak ChIP-seq eCLIP
updated 4.5 years ago by 103k • written 4.5 years ago by ▴ 100
0
votes
1
reply
1.1k
views
Batch effect correction without detecting any clustering on batches
batch-effect rna RNA-seq
4.5 years ago by SHN ▴ 40
2
votes
4
replies
3.6k
views
Which formula of Bray-Curtis beta diversity index should be used for microbiome beta diversity analysis?
diversity
updated 4.5 years ago by 3.4k • written 4.5 years ago by ▴ 250
0
votes
0
replies
809
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
ppi cancer networks genomics
4.5 years ago by martin.schaefer ▴ 10
0
votes
1
reply
1.1k
views
Integrating mRNA expression data with chips data to get the epigenetic profiles of H3k27me3, H3K4me3 and EZH2 in GBM
pipeline
updated 4.5 years ago by ★ 19k • written 4.5 years ago by ▴ 30
4
votes
4
replies
1.5k
views
Will mapping Read 1 in Single Cell 3' sequencing increase mapping accuracy or not?
singlecell zUMI mapping 3`sequencing scruff
updated 4.5 years ago by 153k • written 4.5 years ago by ★ 2.2k
5
votes
2
replies
2.3k
views
Infering strand specificity of bam files using rseqc?
RSeQC bam featureCounts
updated 4.5 years ago by 103k • written 4.5 years ago by ★ 4.4k
5
votes
4
replies
1.6k
views
Bowtie2 unpaired mode usage
sam bowtie2
4.5 years ago by Jimpix ▴ 10
0
votes
3
replies
1.4k
views
RNA seq data analysis without control samples
novelandtranscriptisoforms RNAseq
4.5 years ago by vasanthmandla • 0
5
votes
7
replies
18k
views
How to identify cell types using addModuleScore function?
single cell RNA-seq
updated 4.2 years ago by ▴ 120 • written 5.0 years ago by ▴ 190
1
vote
4
replies
2.7k
views
BLAST results shows partial matches
blast BLAST assembly
4.5 years ago by langziv ▴ 70
10
votes
18
replies
4.6k
views
How to concatenate FASTA files in a specific order based on sequence ID
sequence fasta awk python pipeline
4.5 years ago by Apex92 ▴ 320
5
votes
4
replies
1.4k
views
Could I analyze just a few genes of a BAM file?
RNA-Seq BAM
updated 4.3 years ago by 45k • written 4.5 years ago by ▴ 110
1
vote
2
replies
1.3k
views
Some questions about the CPTAC data processing
programming genomics protein
4.5 years ago by tujuchuanli ▴ 130
1
vote
1
reply
1.0k
views
Forum: Sharing frequently asked questions about microbial genome sequencing II
microbial faq genome sequencing meta
updated 4.5 years ago by 103k • written 4.5 years ago by ▴ 510
0
votes
2
replies
2.3k
views
Reactome Pathway Analysis from command line
RNA-Seq gene
updated 4.5 years ago by ▴ 580 • written 7.7 years ago by ▴ 80
3
votes
4
replies
1.5k
views
Fasta header contain multiple string
fasta
updated 4.5 years ago by 21k • written 4.5 years ago by ▴ 40
4
votes
3
replies
1.8k
views
K-mer usage in metagenome assemblies
Assembly metagenomics k-mer
4.5 years ago by v.berriosfarias ▴ 140
4
votes
3
replies
4.1k
views
Downsampling fastq reads
next-gen metagenomics
updated 4.5 years ago by ▴ 330 • written 4.6 years ago by ▴ 20
2
votes
4
replies
2.6k
views
featureCounts assignment low when mapping to "exon"
RNA-seq E.coli featureCounts
4.5 years ago by gt ▴ 30
8
votes
0
replies
3.8k
views
Tutorial: Pipes in R: An introduction and some advanced tips and tricks.
R
4.5 years ago by rpolicastro 13k
0
votes
0
replies
809
views
NormFinder Error
Normalization R-Studio RNASeq
4.5 years ago by far.zi ▴ 10
2
votes
4
replies
2.1k
views
How to calculate variant length for each sample
genome
updated 4.5 years ago by 103k • written 4.5 years ago by ▴ 10
4
votes
3
replies
1.4k
views
Score from correlations per genes in DGE results
scoring genomics rna enrichment
updated 4.5 years ago by 13k • written 4.5 years ago by ▴ 10
72
votes
25
replies
20k
views
12 follow
Tool: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq SRA
updated 23 months ago by 153k • written 6.6 years ago by ★ 1.5k
2
votes
3
replies
1.6k
views
References saying that BWA is not quite specific
bwamem aligner
4.5 years ago by marongiu.luigi ▴ 760
0
votes
0
replies
1.0k
views
ChIP-seq peak calling with MACS2 - some large peaks for transcription factor
chip-seq macs2 peakcalling
4.5 years ago by becky.reese17 • 0
1
vote
3
replies
3.7k
views
ChromHMM: chromatin states to genome % coverage?
ChIP-Seq ChromHMM
updated 4.5 years ago by • 0 • written 8.5 years ago by ▴ 10
3
votes
5
replies
5.0k
views
SingleR Cluster-wise annotation
Seurat SingleR annotation scRNA-seq CellType
updated 4.5 years ago by 89k • written 4.5 years ago by ▴ 140
3
votes
2
replies
1.3k
views
find overlapping transcripts
transcript RNAseq
updated 4.5 years ago by 36k • written 4.5 years ago by ▴ 20
2
votes
2
replies
1.3k
views
How to split the .bigWig file into equal size of bin?
programming mapping alignment
updated 4.5 years ago by 36k • written 4.5 years ago by • 0
2
votes
7
replies
2.5k
views
PCAplot to investigate PC2 loadings using DESeq data
PCATools
4.5 years ago by n.tear ▴ 80
3
votes
11
replies
3.0k
views
Important genes are not differentially expressed
genomics R DEseq2 Rnasequencing
updated 4.5 years ago by 5.8k • written 4.5 years ago by • 0
0
votes
0
replies
1.4k
views
prepDE.py read length choice for paired-end sequencing reads
data genomics
4.4 years ago by 1234gingko ▴ 50
2
votes
2
replies
1.2k
views
How to find that genes are up or down-regulated in which condition
enrichment sequencing python genomics
4.5 years ago by StartR ▴ 30
2
votes
2
replies
1.2k
views
Asking for papers: rare variants of potentially moderate impact
human disease genetics
4.5 years ago by German.M.Demidov ★ 3.0k
6
votes
5
replies
1.9k
views
TB drug resistance pipeline
genomics workflow
updated 3.8 years ago by ▴ 10 • written 4.5 years ago by ▴ 10
121,907 results • Page 683 of 2439
Recent Votes
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
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
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Recent Replies
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…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
The average is 1.8kb. I was planning to post it on GitHub, but it seems like the repository has been unattended for the last months, so I d…
Comment: Getting just fastqc.zip file? by GenoMax 153k
Yes, You can either use it on command line or use the graphical user interface.
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