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Recent Replies
Answer: Convert Bam file to Fastq
by
Michael
52k
I think your code is incorrect bash syntax. I think you want something like this:
sort bam_headers.txt > bam_haeders-sorted.txt # c…
Comment: Combination of ROC CURVE
by
Maria17
▴
20
For example, if three targets are combined and the mean value is plotted, the different combinations give different numbers, but there are …
Comment: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
by
Kermit
▴
80
neither simple nor helpful
Comment: Convert Bam file to Fastq
by
Michael
52k
At first, I would trust samtools to do the right thing but of course it doesn't hurt to double check. But I think the crux is what is in fa…
Comment: Convert Bam file to Fastq
by
Pierre Lindenbaum
154k
paste fastq1_read_ids.txt fastq2_read_ids.txt is a tabular file with two column. Is it the same for bam_read_names.txt ?
Answer: WGCNA Trait File Issues
by
Jennifer M
•
0
![enter image description here][1]
[1]: /media/images/0cf4eaa7-9550-4bbb-b43e-208dc787
Comment: Pairwise Alignment
by
WouterDeCoster
47k
> for whole genome analysis
What do you mean with that? You provide too little information for us to answer your question.
Comment: Getting species names and taxa id from assembly accession number
by
GenoMax
129k
There must be some temporary glitch.
Following command works (via EntrezDirect):
$ esearch -db assembly -query GCA_000001405.29 | esu…
Comment: h5ad cellxgene to R
by
abmmki
•
0
matrix=adata.X.toarray()
feature_names = adata.var['feature_name']
pd.DataFrame(data=matrix, index=adata.obs_names, c…
Comment: h5ad cellxgene to R
by
abmmki
•
0
I am trying use the same data and same method. But when I read the csv expression matrix in R, it frozen. Could you share your final seurat…
Comment: h5ad cellxgene to R
by
abmmki
•
0
I am trying use the same data and same method. But when I read the csv expression matrix in R, it frozen. Could you share your final seurat…
Comment: (ERR): "index/Trinity.fa" does not exist or is not a Bowtie 2 index Exiting now
by
eimanpharmacist
▴
20
I think the problem in bowtie2 installation. it was installed using this: `conda install -c bioconda bowtie2`
I removed it then re-installe…
Comment: Where to get the molecular subtype information of STAD sample in TCGA
by
Hamid Ghaedi
2.9k
Give `TCGAbiolinks` package a try.
Comment: How to calculate TPM from featureCounts output
by
survive
•
0
hi, So i will need to download the raw .fastq file from SRA and run salmon/Kallisto, instead of using the featureCounts?
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