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Hi,
Has anyone tried CIDR to cluster ChIP-seq data?
Any recommendations on where to start with?
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Titles:
- Managing bioinformatic software and pipelines
- How to do bioinformatics like a professional bioinformatician
- Reproducible and scalable bioinformatics for researchers
Prerequisite…
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I have encountered an issue with the newer CH1120 driver IC, which seems to be replacing the SH1108.
The OLED module looks absolutely the same, has the same pinout (SPI connection) and same resoluti…
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# Data overlap
## Generate a `data overlap matrix`. Overlapping to the `ATAC-Seq differential accessible regions`
- [x] **ChIP-Seq:** `TRUE` or `FALSE` of there is an overlap between ATAC-Seq an…
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Hi,
I have a ESP32-C3-PICO-A that doesn't use USB for serial, so I use a FTDI for serial. I have it loading the ESP32 C3 with this code
`Connecting...
Detecting chip type... ESP32-C3
Chip is …
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I'm encountering an error with the animint2dir function in the source code https://github.com/tdhock/animint-examples/blob/9faceb518e669bb5ce4e99702c7b7d95dfebb22d/examples/chip.seq.R.
Here is the…
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With file names:
```
SRR1917137_GSM1635411_Ikaros_ChIP-Seq,_proB_cells_Mus_musculus_ChIP-Seq_1.fastq.gz
SRR1917139_GSM1635413_Brg1_ChIP-Seq,_proB_cells_Mus_musculus_ChIP-Seq_1.fastq.gz
SRR191714…
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## **Describe the bug**
I'm running the transcription factor chipseq pipeline. I have one sample out of 16 that failed the pipeline. I'm trying to determine whether the sample may be poor or whether …
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I have been able to successfully run the chip-seq pipeline for the example json and my own histone bam files. However, while passing in a custom **tf** .bam file, I am running into errors that I am no…
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I'd like to use the `integrate_ChIP_RNA()` function to find the targets of my TF of interest. I have the RNA-seq differential gene expression result (TF inhibitor drug vs. vehicle control RNA-seq data…