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-rw-r--r--brain.documentation/QUICKSTART.rst2
1 files changed, 1 insertions, 1 deletions
diff --git a/brain.documentation/QUICKSTART.rst b/brain.documentation/QUICKSTART.rst
index 271cd4d..eb75c61 100644
--- a/brain.documentation/QUICKSTART.rst
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@@ -326,7 +326,7 @@ A2_S1_quant.txt is generated by Salmon (see download_and_map.py), and has the fo
.. make_parameter_rnaseq.py assembles all small TPM files. Specify on the top a gene list in parameter_for_buildRmatrix.txt so that only the TPM values for these genes are collected.
-- Output: a matrix of TPM values, stored in the file TPM.txt (under *Data/history/expr*). If a gene has isoforms, then use the largest TPM value from these isoforms.
+- Output: a matrix of TPM values, stored in the file TPM.txt (under *Data/history/expr*). If a gene has isoforms, then use the largest TPM value from these isoforms. You can get the number of columns in TPM.txt using sed Linux command: awk -F'\t' '{print NF; exit}' Data/history/expr/TPM.txt
Getting a final TPM matrix involves first downloading RNA-seq data and mapping them.